Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 55 of 222
Found at i:16623681 original size:6 final size:6
Alignment explanation
Indices: 16623670--16623707 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
16623660 TGAAAGTGAT
16623670 AAAAAG AAAAAG AAAAAG -AAAA- AAAAAG -AAAAG AAAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAA
16623708 TAGAGAGGCC
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
5 13 0.45
6 16 0.55
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:16625062 original size:88 final size:88
Alignment explanation
Indices: 16624913--16625310 Score: 562
Period size: 88 Copynumber: 4.5 Consensus size: 88
16624903 AGCAGATCAG
* * * *
16624913 TAAAAATAGCAGATCTGGCCTTCCTGCACCAACAGCAAAGTAGATCAAAGACACCAGCCTTGCCT
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCT
*
16624978 CCCTGGGTTGCAGTGGAGCAGGT
66 CCCTGGGTTGCAGCGGAGCAGGT
* * * * *
16625001 TAAAAATAACAGATCTTGTCTTCCTGCGCCGACAGTGAAGCAGATCAAAGACACCTGCCTTGCCT
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCT
16625066 CCCTGGGTTGCAGCGGAGCAGGT
66 CCCTGGGTTGCAGCGGAGCAGGT
* *
16625089 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGTGAAGCAGATCGAAGACACCAGCCTTGCCT
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCT
*
16625154 CCCTGGGTTGTAGCGGAGCAGGT
66 CCCTGGGTTGCAGCGGAGCAGGT
* * * * **
16625177 TAAAAATAGCAAATCTTGCTTTCATGCACCGACACCGAAGCAGATTGAAGACACCAGCCTTGCCT
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCT
* *
16625242 TCCTGGGTTGCAACGGAGCAGGT
66 CCCTGGGTTGCAGCGGAGCAGGT
* * * *
16625265 TAAAAAATAGTAAATCTTGTCTTCCTGCACCGACAGCGAAGTAGAT
1 T-AAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGAT
16625311 TGATGACCCC
Statistics
Matches: 278, Mismatches: 31, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
88 240 0.86
89 38 0.14
ACGTcount: A:0.29, C:0.26, G:0.24, T:0.21
Consensus pattern (88 bp):
TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCT
CCCTGGGTTGCAGCGGAGCAGGT
Found at i:16625109 original size:44 final size:44
Alignment explanation
Indices: 16624971--16625195 Score: 139
Period size: 44 Copynumber: 5.1 Consensus size: 44
16624961 AGACACCAGC
*
16624971 CTTGCCTCCCTGGGTTGCAGTGGAGCAGGTTAAAAATAACAGAT
1 CTTGCCTCCCTGGGTTGCAGTGGAGCAGGTTAAAAATACCAGAT
* * * ** * * * * * * *
16625015 CTTGTCTTCCTGCGCCGACAGTGAAGCAGATCAAAGACACCTG-C
1 CTTGCCTCCCTGGGTTG-CAGTGGAGCAGGTTAAAAATACCAGAT
* *
16625059 CTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGAT
1 CTTGCCTCCCTGGGTTGCAGTGGAGCAGGTTAAAAATACCAGAT
* **** * * ** * * *
16625103 CTTGCCTTCCTGCACCGACAGTGAAGCAGATCGAAGACACCAG-C
1 CTTGCCTCCCTGGGTTG-CAGTGGAGCAGGTTAAAAATACCAGAT
* * * *
16625147 CTTGCCTCCCTGGGTTGTAGCGGAGCAGGTTAAAAATAGCAAAT
1 CTTGCCTCCCTGGGTTGCAGTGGAGCAGGTTAAAAATACCAGAT
16625191 CTTGC
1 CTTGC
16625196 TTTCATGCAC
Statistics
Matches: 120, Mismatches: 57, Indels: 8
0.65 0.31 0.04
Matches are distributed among these distances:
43 32 0.27
44 53 0.44
45 35 0.29
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.22
Consensus pattern (44 bp):
CTTGCCTCCCTGGGTTGCAGTGGAGCAGGTTAAAAATACCAGAT
Found at i:16625390 original size:44 final size:44
Alignment explanation
Indices: 16625324--16625612 Score: 351
Period size: 44 Copynumber: 6.7 Consensus size: 44
16625314 TGACCCCAGC
* *
16625324 CCTATCTCCCTGGTCAGTAGTGGAATAGGTTGAAGATTGAGAAT
1 CCTATCTCCCTGGGCAGCAGTGGAATAGGTTGAAGATTGAGAAT
* *
16625368 TCTATCTCCCTGGGCAGCAGTGGAATAGATT--A-A---AGAAT
1 CCTATCTCCCTGGGCAGCAGTGGAATAGGTTGAAGATTGAGAAT
* * *
16625406 CCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAAT
1 CCTATCTCCCTGGGCAGCAGTGGAATAGGTTGAAGATTGAGAAT
*
16625450 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGAGAAT
1 CCTATCTCCCTGGGCAGCAGTGGAATAGGTTGAAGATTGAGAAT
* * *
16625494 TCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTGTAG-GT
1 CCTATCTCCCTGGGCAGCAGTGGAATAGGTTGAAGATTG-AGAAT
** * *
16625538 CCTATCTCCCTGGTTAGCAGTGGAATAGGTTGAAGATCGTGAA-
1 CCTATCTCCCTGGGCAGCAGTGGAATAGGTTGAAGATTGAGAAT
* *
16625581 CCTTATCTCCCTGAGCAGCAGTGGAGTAGGTT
1 CC-TATCTCCCTGGGCAGCAGTGGAATAGGTT
16625613 AAAAATACCA
Statistics
Matches: 210, Mismatches: 26, Indels: 18
0.83 0.10 0.07
Matches are distributed among these distances:
38 33 0.16
40 1 0.00
41 2 0.01
42 1 0.00
43 3 0.01
44 168 0.80
45 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (44 bp):
CCTATCTCCCTGGGCAGCAGTGGAATAGGTTGAAGATTGAGAAT
Found at i:16625473 original size:126 final size:130
Alignment explanation
Indices: 16625324--16625612 Score: 437
Period size: 126 Copynumber: 2.2 Consensus size: 130
16625314 TGACCCCAGC
*
16625324 CCTATCTCCCTGGTCAGTAGTGGAATAGGTTGAAGATTGAGAATTCTATCTCCCTGGGCAGCAGT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGAGAATTCTATCTCCCTGGGCAGCAGT
*
16625389 GGAATAGATT-AA-A-G-A-ATCCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAA
66 GGAATAGATTGAAGATGTAGATCCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATCGTGAA
16625449 TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGAGAATTCTATCTCCCTGGGCAGCAG
1 -CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGAGAATTCTATCTCCCTGGGCAGCAG
* ** *
16625514 TGGAATAGATTGAAGATTGTAGGTCCTATCTCCCTGGTTAGCAGTGGAATAGGTTGAAGATCGTG
65 TGGAATAGATTGAAGA-TGTAGATCCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATCGTG
16625579 AA
129 AA
*
16625581 CCTTATCTCCCTGAG-CAGCAGTGGAGTAGGTT
1 CC-TATCTCCCTG-GTCAGCAGTGGAATAGGTT
16625613 AAAAATACCA
Statistics
Matches: 148, Mismatches: 7, Indels: 10
0.90 0.04 0.06
Matches are distributed among these distances:
126 74 0.50
127 2 0.01
128 1 0.01
130 1 0.01
131 3 0.02
132 66 0.45
133 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (130 bp):
CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGAGAATTCTATCTCCCTGGGCAGCAGT
GGAATAGATTGAAGATGTAGATCCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATCGTGAA
Found at i:16631949 original size:12 final size:12
Alignment explanation
Indices: 16631932--16631956 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
16631922 TTTGATTATG
16631932 AAATCTCAAACA
1 AAATCTCAAACA
16631944 AAATCTCAAACA
1 AAATCTCAAACA
16631956 A
1 A
16631957 TCACAATCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.24, G:0.00, T:0.16
Consensus pattern (12 bp):
AAATCTCAAACA
Found at i:16638497 original size:9 final size:9
Alignment explanation
Indices: 16638483--16638507 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
16638473 CACTCAATAG
16638483 AACAACATC
1 AACAACATC
16638492 AACAACATC
1 AACAACATC
16638501 AACAACA
1 AACAACA
16638508 ACAAAGTTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.60, C:0.32, G:0.00, T:0.08
Consensus pattern (9 bp):
AACAACATC
Found at i:16648200 original size:2 final size:2
Alignment explanation
Indices: 16648193--16648222 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
16648183 CATTCCGAAG
*
16648193 TA TA TA TA TA TA TA CA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
16648223 CATAAGTATG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:16648739 original size:27 final size:27
Alignment explanation
Indices: 16648708--16648885 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
16648698 TAAATTGTAC
16648708 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
16648735 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
16648761 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
16648789 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
16648817 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
16648844 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
16648871 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
16648886 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:16648822 original size:82 final size:81
Alignment explanation
Indices: 16648709--16648864 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
16648699 AAATTGTACA
* *
16648709 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
16648773 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
16648790 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
16648855 TGCGAGTTGA
65 TGCGAATTGA
16648865 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:16648876 original size:82 final size:81
Alignment explanation
Indices: 16648705--16648885 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
16648695 GATTAAATTG
* *
16648705 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
16648770 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
16648786 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
16648850 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
16648868 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
16648886 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:16653882 original size:19 final size:19
Alignment explanation
Indices: 16653855--16653895 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
16653845 TAAAATAAGT
16653855 ATGTGATTACAATCATCTC
1 ATGTGATTACAATCATCTC
*
16653874 ATGTTATTACAATCATCTC
1 ATGTGATTACAATCATCTC
16653893 ATG
1 ATG
16653896 ATTAGTCTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.32, C:0.20, G:0.10, T:0.39
Consensus pattern (19 bp):
ATGTGATTACAATCATCTC
Found at i:16672237 original size:80 final size:79
Alignment explanation
Indices: 16672153--16672324 Score: 211
Period size: 79 Copynumber: 2.2 Consensus size: 79
16672143 GGACTAAGAT
*
16672153 CCGAAGGCATTTGTGCGAGAT-ACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATGACAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
16672217 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * ** * * * *
16672233 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATGACAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
16672298 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
16672312 CCGAAGGCATTTG
1 CCGAAGGCATTTG
16672325 AACGAGGAGC
Statistics
Matches: 78, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
79 38 0.49
80 37 0.47
81 3 0.04
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATGACAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:16672304 original size:39 final size:39
Alignment explanation
Indices: 16672100--16672322 Score: 200
Period size: 40 Copynumber: 5.6 Consensus size: 39
16672090 TTGAATGCTG
* * * * *
16672100 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
16672140 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
16672179 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* **
16672220 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
16672260 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
16672299 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
16672323 TGAACGAGGA
Statistics
Matches: 155, Mismatches: 20, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
39 39 0.25
40 102 0.66
41 13 0.08
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:16672342 original size:79 final size:80
Alignment explanation
Indices: 16672180--16672357 Score: 198
Period size: 79 Copynumber: 2.2 Consensus size: 80
16672170 AGATACAAAT
* * * *
16672180 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** ** *
16672245 GTGCGAGTTGTTAAA
66 GAACGAGGAGCTAAA
* * * * *
16672260 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
16672324 GAACGAGGAGCTATA
66 GAACGAGGAGCTAAA
*
16672339 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
16672358 TACGTGATTT
Statistics
Matches: 81, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
78 14 0.17
79 49 0.60
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGGAGCTAAA
Found at i:16698637 original size:25 final size:25
Alignment explanation
Indices: 16698609--16698738 Score: 84
Period size: 25 Copynumber: 5.2 Consensus size: 25
16698599 ATAACACGTG
*
16698609 GGCTTTTTAGATAACTCGCCACAAA
1 GGCTTTTCAGATAACTCGCCACAAA
* * *
16698634 GGCTTTCCAGATAA-TATGCCACATA
1 GGCTTTTCAGATAACT-CGCCACAAA
* *
16698659 GGC-CTTCAGATAACTCGCCATAAA
1 GGCTTTTCAGATAACTCGCCACAAA
* * * * * *
16698683 GGCTTTCCAAATGACTTGTCGCAAA
1 GGCTTTTCAGATAACTCGCCACAAA
* * * *
16698708 GGCTTTCCAAATAACTTTGCCACTAA
1 GGCTTTTCAGATAAC-TCGCCACAAA
16698734 GGCTT
1 GGCTT
16698739 CCCAAATAAT
Statistics
Matches: 80, Mismatches: 21, Indels: 7
0.74 0.19 0.06
Matches are distributed among these distances:
24 18 0.22
25 50 0.62
26 12 0.15
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (25 bp):
GGCTTTTCAGATAACTCGCCACAAA
Found at i:16698673 original size:49 final size:50
Alignment explanation
Indices: 16698557--16698764 Score: 159
Period size: 50 Copynumber: 4.1 Consensus size: 50
16698547 CGGGTTGCAA
* * * * * ** *
16698557 AGGCTTTCCAGATAACTTCACCACTAAGGCTTCCCAAATAGTATAACACGT
1 AGGCCTTCCAGATAAC-TCGCCACAAAGGCTTTCCAAATAATATGCCACAT
* * ** *
16698608 GGGCTTTTTAGATAACTCGCCACAAAGGCTTTCCAGATAATATGCCACAT
1 AGGCCTTCCAGATAACTCGCCACAAAGGCTTTCCAAATAATATGCCACAT
* * * * *
16698658 AGGCCTT-CAGATAACTCGCCATAAAGGCTTTCCAAATGACT-TGTCGCAA
1 AGGCCTTCCAGATAACTCGCCACAAAGGCTTTCCAAAT-AATATGCCACAT
* * * * *
16698707 AGGCTTTCCAAATAACTTTGCCACTAAGGCTTCCCAAATAATATGCCACAT
1 AGGCCTTCCAGATAAC-TCGCCACAAAGGCTTTCCAAATAATATGCCACAT
*
16698758 AGACCTT
1 AGGCCTT
16698765 TTAAATAACT
Statistics
Matches: 121, Mismatches: 32, Indels: 8
0.75 0.20 0.05
Matches are distributed among these distances:
49 38 0.31
50 42 0.35
51 41 0.34
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.26
Consensus pattern (50 bp):
AGGCCTTCCAGATAACTCGCCACAAAGGCTTTCCAAATAATATGCCACAT
Found at i:16698743 original size:26 final size:25
Alignment explanation
Indices: 16698706--16698755 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
16698696 ACTTGTCGCA
* *
16698706 AAGGCTTTCCAAATAACTTTGCCACT
1 AAGGCTTCCCAAATAA-TATGCCACT
16698732 AAGGCTTCCCAAATAATATGCCAC
1 AAGGCTTCCCAAATAATATGCCAC
16698756 ATAGACCTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 7 0.32
26 15 0.68
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.26
Consensus pattern (25 bp):
AAGGCTTCCCAAATAATATGCCACT
Found at i:16704174 original size:48 final size:48
Alignment explanation
Indices: 16704105--16704303 Score: 236
Period size: 48 Copynumber: 4.1 Consensus size: 48
16704095 TCGAAATAAA
* * *
16704105 AACAGATTTCTCGGTGGCCTGCACACAGTCCATACCACCTTTGTATAAT
1 AACAGA-TTCTCGGTGGCCTGCACACAGTCCATGCCACCCTTGTATCAT
* * * *
16704154 AATAGATTCTCGGTGGCCTGCACATAGTCCGTGCCACCCTTGTATCTT
1 AACAGATTCTCGGTGGCCTGCACACAGTCCATGCCACCCTTGTATCAT
* * * * *
16704202 AACAGGTTGTTGGTGGCCTGCACACAGTCCGTGCCACCCTTATATCAT
1 AACAGATTCTCGGTGGCCTGCACACAGTCCATGCCACCCTTGTATCAT
* * * * *
16704250 AACAAAATATTGGTGGCCTGCACACAGTCCATGCCACCCTTGTGTCAT
1 AACAGATTCTCGGTGGCCTGCACACAGTCCATGCCACCCTTGTATCAT
16704298 AACAGA
1 AACAGA
16704304 ATATCGGTAC
Statistics
Matches: 128, Mismatches: 22, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
48 123 0.96
49 5 0.04
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.27
Consensus pattern (48 bp):
AACAGATTCTCGGTGGCCTGCACACAGTCCATGCCACCCTTGTATCAT
Found at i:16713303 original size:10 final size:10
Alignment explanation
Indices: 16713283--16713314 Score: 50
Period size: 9 Copynumber: 3.4 Consensus size: 10
16713273 TTAATTAAAG
16713283 TTTAT-AATT
1 TTTATAAATT
16713292 TTT-TAAATT
1 TTTATAAATT
16713301 TTTATAAATT
1 TTTATAAATT
16713311 TTTA
1 TTTA
16713315 ATAATTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 1 0.05
9 10 0.48
10 10 0.48
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (10 bp):
TTTATAAATT
Found at i:16713650 original size:23 final size:22
Alignment explanation
Indices: 16713611--16713653 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
16713601 GATTGAATTG
16713611 AATTTTTAATATCTTATTTTAT
1 AATTTTTAATATCTTATTTTAT
16713633 AATTTTATAATAAT-TTATTTT
1 AATTTT-TAAT-ATCTTATTTT
16713654 TATTGAACCG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.32
23 11 0.58
24 2 0.11
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (22 bp):
AATTTTTAATATCTTATTTTAT
Found at i:16715781 original size:9 final size:9
Alignment explanation
Indices: 16715767--16715831 Score: 53
Period size: 9 Copynumber: 7.1 Consensus size: 9
16715757 ATACACATTA
16715767 AAAAAATAT
1 AAAAAATAT
*
16715776 AAAAAATAG
1 AAAAAATAT
*
16715785 AAATGAATAT
1 AAA-AAATAT
16715795 ATAAAAAT-T
1 A-AAAAATAT
16715804 CAAAAAA-AT
1 -AAAAAATAT
* *
16715813 ATAAAATCT
1 AAAAAATAT
16715822 AAAAAATAT
1 AAAAAATAT
16715831 A
1 A
16715832 TATCATAAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 10
0.70 0.13 0.16
Matches are distributed among these distances:
8 5 0.12
9 27 0.63
10 9 0.21
11 2 0.05
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.23
Consensus pattern (9 bp):
AAAAAATAT
Found at i:16715813 original size:20 final size:19
Alignment explanation
Indices: 16715766--16715818 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
16715756 TATACACATT
*
16715766 AAAAAAATATAAAAAATAG
1 AAAAAAATATAAAAAATAC
** *
16715785 AAATGAATATATAAAAATTC
1 AAAAAAATATA-AAAAATAC
16715805 AAAAAAATATAAAA
1 AAAAAAATATAAAA
16715819 TCTAAAAAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
19 12 0.44
20 15 0.56
ACGTcount: A:0.74, C:0.02, G:0.04, T:0.21
Consensus pattern (19 bp):
AAAAAAATATAAAAAATAC
Found at i:16715827 original size:16 final size:17
Alignment explanation
Indices: 16715793--16715851 Score: 61
Period size: 16 Copynumber: 3.5 Consensus size: 17
16715783 AGAAATGAAT
16715793 ATATAAAAATTCA-AAAAA
1 ATAT-AAAA-TCATAAAAA
16715811 ATATAAAATC-TAAAAA
1 ATATAAAATCATAAAAA
*
16715827 ATAT-ATATCATAAAAA
1 ATATAAAATCATAAAAA
16715843 ATTATAAAA
1 A-TATAAAA
16715852 ATAAAATTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
15 4 0.11
16 18 0.51
17 7 0.20
18 6 0.17
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (17 bp):
ATATAAAATCATAAAAA
Found at i:16716039 original size:27 final size:27
Alignment explanation
Indices: 16715987--16716039 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
16715977 AAAGGTTTTT
**
16715987 AAATTTAAATTTTTTTTCAATTATTTA
1 AAATTTAAATTTTTTTTCAAAAATTTA
16716014 AAATTTAAATATTTTTTT-AAAAATTT
1 AAATTTAAAT-TTTTTTTCAAAAATTT
16716040 TATAACATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 16 0.70
28 7 0.30
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (27 bp):
AAATTTAAATTTTTTTTCAAAAATTTA
Found at i:16716041 original size:28 final size:26
Alignment explanation
Indices: 16715982--16716041 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 26
16715972 TCTAAAAAGG
* * *
16715982 TTTTTAAATTTAAATTTTTTTTCAAT
1 TTTTAAAATTTAAATTTTTTTTAAAA
16716008 TATTTAAAATTTAAATATTTTTTTAAAAA
1 T-TTTAAAATTTAAAT-TTTTTTT-AAAA
16716037 TTTTA
1 TTTTA
16716042 TAACATTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
26 1 0.04
27 13 0.46
28 11 0.39
29 3 0.11
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (26 bp):
TTTTAAAATTTAAATTTTTTTTAAAA
Found at i:16716139 original size:24 final size:26
Alignment explanation
Indices: 16716095--16716153 Score: 79
Period size: 25 Copynumber: 2.3 Consensus size: 26
16716085 TTTATAATTA
16716095 TATATTTTAGAATTTTATAAAAAAAT
1 TATATTTTAGAATTTTATAAAAAAAT
*
16716121 TAT-TTTTA-AACTTTT-TAAAAAATT
1 TATATTTTAGAA-TTTTATAAAAAAAT
16716145 TATATTTTA
1 TATATTTTA
16716154 TATAAGATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
24 13 0.43
25 14 0.47
26 3 0.10
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (26 bp):
TATATTTTAGAATTTTATAAAAAAAT
Found at i:16716351 original size:19 final size:19
Alignment explanation
Indices: 16716293--16716351 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
16716283 AAAGTTCTTT
*
16716293 ATATTTAAATATTTAATATT-
1 ATATTTTAAT-TTTAA-ATTA
* *
16716313 ATATTTTAATTTTTATTTA
1 ATATTTTAATTTTAAATTA
*
16716332 ATATTTTTATTTTAAATTA
1 ATATTTTAATTTTAAATTA
16716351 A
1 A
16716352 CCTAATTACC
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
18 2 0.06
19 21 0.66
20 9 0.28
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
ATATTTTAATTTTAAATTA
Found at i:16717642 original size:19 final size:19
Alignment explanation
Indices: 16717580--16717648 Score: 52
Period size: 19 Copynumber: 3.5 Consensus size: 19
16717570 GACAATTTCC
*
16717580 ATTAAGTGTAATTAATGGTTGG
1 ATTAAGT-TAATTAA--GTTAG
* **
16717602 ATTATGTTAATTAA-CAATG
1 ATTAAGTTAATTAAGTTA-G
16717621 ATTAAGTTAATTAAGTTAG
1 ATTAAGTTAATTAAGTTAG
16717640 ATTAA-TTAA
1 ATTAAGTTAA
16717649 GTCTTAATCA
Statistics
Matches: 38, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
18 4 0.11
19 20 0.53
20 1 0.03
21 7 0.18
22 6 0.16
ACGTcount: A:0.41, C:0.01, G:0.16, T:0.42
Consensus pattern (19 bp):
ATTAAGTTAATTAAGTTAG
Found at i:16719468 original size:6 final size:6
Alignment explanation
Indices: 16719454--16719492 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
16719444 GGATTGCAAG
* * *
16719454 TTTCCA TTTCTA TTTTCA TTTTCA TTTCCA TTTCCA TTT
1 TTTCCA TTTCCA TTTCCA TTTCCA TTTCCA TTTCCA TTT
16719493 TTGGAAACCT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.15, C:0.23, G:0.00, T:0.62
Consensus pattern (6 bp):
TTTCCA
Found at i:16723701 original size:30 final size:30
Alignment explanation
Indices: 16723678--16723937 Score: 405
Period size: 30 Copynumber: 8.7 Consensus size: 30
16723668 GTATATGTTT
* * *
16723678 TATATATTTCCGAATTGA-TTGTATATGGG
1 TATACATTGCCGAATTGATTTGTATATGGA
16723707 TATACATTGCCGAATTGATTTGTATATGGA
1 TATACATTGCCGAATTGATTTGTATATGGA
* *
16723737 TATACATTGTCAAATTGATTTGTATATGGA
1 TATACATTGCCGAATTGATTTGTATATGGA
16723767 TATACATTGCCGAATTGATTTGTATATGGA
1 TATACATTGCCGAATTGATTTGTATATGGA
*
16723797 TATACATTGCCGAATTAATTTGTATATGGA
1 TATACATTGCCGAATTGATTTGTATATGGA
* *
16723827 TATACATTGCTGAATTGATTTGTATATCGA
1 TATACATTGCCGAATTGATTTGTATATGGA
* *
16723857 TATAGATTGCCGAATTGATTTGTATATAGA
1 TATACATTGCCGAATTGATTTGTATATGGA
*
16723887 TATACATTGCCGAATTGATTTGTATATGTA
1 TATACATTGCCGAATTGATTTGTATATGGA
*
16723917 TATATATTGCCGAATTGATTT
1 TATACATTGCCGAATTGATTT
16723938 AAGCATTGGA
Statistics
Matches: 212, Mismatches: 18, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
29 16 0.08
30 196 0.92
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.42
Consensus pattern (30 bp):
TATACATTGCCGAATTGATTTGTATATGGA
Found at i:16733621 original size:86 final size:86
Alignment explanation
Indices: 16733448--16733613 Score: 235
Period size: 86 Copynumber: 1.9 Consensus size: 86
16733438 CTTTTTAAAC
* * *
16733448 ATTTAAATTTTAAATTATTCCAAATACTTTTTGGGAATATTTGAAATACAGTTTATAAATAAATA
1 ATTTAAAATTTAAATTATTCCAAATACTTTTTGGGAATATTTGAAATACAGTGTATAAAGAAATA
* ***
16733513 AAAATTATATGTATGACATAT
66 AAAATTAAAAAAATGACATAT
*
16733534 ATTTAAAATTTAAATTATTCCAAATACTTTTTGGGAATATTTGAAATACGGTGTATAAAGAAA-A
1 ATTTAAAATTTAAATTATTCCAAATACTTTTTGGGAATATTTGAAATACAGTGTATAAAGAAATA
16733598 AAAAGTTGAAAAAAAT
66 AAAA-TT-AAAAAAAT
16733614 ATTTATATAA
Statistics
Matches: 70, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
85 5 0.07
86 61 0.87
87 4 0.06
ACGTcount: A:0.46, C:0.05, G:0.10, T:0.38
Consensus pattern (86 bp):
ATTTAAAATTTAAATTATTCCAAATACTTTTTGGGAATATTTGAAATACAGTGTATAAAGAAATA
AAAATTAAAAAAATGACATAT
Found at i:16773898 original size:6 final size:6
Alignment explanation
Indices: 16773887--16773912 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
16773877 TGGGATATTA
16773887 TTTTGT TTTTGT TTTTGT TTTTGT TT
1 TTTTGT TTTTGT TTTTGT TTTTGT TT
16773913 CCCCAAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (6 bp):
TTTTGT
Found at i:16776664 original size:19 final size:20
Alignment explanation
Indices: 16776642--16776688 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
16776632 TCAAAACAAG
*
16776642 TTCAAAATAATTT-TTAAAA-
1 TTCAAAAT-ATTTATAAAAAT
*
16776661 TTCATAATATTTATAAAAAT
1 TTCAAAATATTTATAAAAAT
16776681 TTCAAAAT
1 TTCAAAAT
16776689 TTATATTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 4 0.17
19 12 0.52
20 7 0.30
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (20 bp):
TTCAAAATATTTATAAAAAT
Found at i:16778499 original size:124 final size:123
Alignment explanation
Indices: 16778216--16778505 Score: 492
Period size: 123 Copynumber: 2.3 Consensus size: 123
16778206 TTATTTCGAG
* * *
16778216 TTGACGTTTCTG-GTCAAATAGTATAAAATCGCGCCCTCGAGGATGTTAATTGAGAAGAAATTGT
1 TTGACGTTTCTGAG-CAAATAGTATAAAATCGCGCCCTCGTGGATGCTAATTAAGAAGAAATTGT
*
16778280 GAAATCGTGCCCTCATGGACGCGATTTTCTACAGTTGGTCATGTAAGAAATAATTTTTT
65 GAAATCGTGCCCTCATGGACGCGATTTGCTACAGTTGGTCATGTAAGAAATAATTTTTT
16778339 TTGACGTTTCTGAGCAAATAGTATAAAATCGCGCCCTCGTGGATGCTAATTAAGAAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCGCCCTCGTGGATGCTAATTAAGAAGAAATTGTG
* * *
16778404 AAATCGTGCCCTCGTGGATGCGCTTTCGCTACAGTTGGTCATGTAAGAAATAATTTTTT
66 AAATCGTGCCCTCATGGACGCGATTT-GCTACAGTTGGTCATGTAAGAAATAATTTTTT
16778463 TTGACGTTTCTGAGCAAATAGTATAAAATCGCGCCCTCGTGGA
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCGCCCTCGTGGA
16778506 CGCGATTTTG
Statistics
Matches: 158, Mismatches: 7, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
123 83 0.53
124 75 0.47
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (123 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCGCCCTCGTGGATGCTAATTAAGAAGAAATTGTG
AAATCGTGCCCTCATGGACGCGATTTGCTACAGTTGGTCATGTAAGAAATAATTTTTT
Found at i:16781723 original size:29 final size:29
Alignment explanation
Indices: 16781690--16782195 Score: 721
Period size: 29 Copynumber: 17.3 Consensus size: 29
16781680 AAATAAATTA
* *
16781690 GGTTAGGGTTTTTAAATAAATTAGGGTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
16781719 GGTTAGGATTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
* * *
16781748 GGTTAGAGTTTTTAAATAAATTAGGTTAA
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
16781777 GGTTAGGGTTTTTAATTAAATTAGGGTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
16781806 GGTTAGGATTTTTAATTAAATTAGGTTTA-
1 GGTTAGGGTTTTTAATTAAATTAGG-TTAG
*
16781835 AGTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
* *
16781864 GGTTAGGGTTTTTAAATAAATTAGGTTAA
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
16781893 GGTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
16781922 GGTTAGGGTTTTTAAATAAATTAGGCTAAGGTTAG
1 GGTTAGGGTTTTTAATTAAA-T----T-AGGTTAG
* *
16781957 GGTTAGGGTTTTTAATTAAATTAGGGTAA
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
16781986 GGTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
* *
16782015 GGTTAGGGTTTTTAAATAAATTAGGTTAA
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
* *
16782044 TGTTAGGG-TTCTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
* *
16782072 GGTTAGGGTTTTTAAATAAATTAGGTTAA
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
16782101 GGTTAGGGTTTTTAATTAAATTAGGTTAA
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
16782130 GGTTAGGG-TTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
* *
16782158 GGTTAGGGTTTTTAATTAAATCAGGTTAA
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
16782187 GGTTAGGGT
1 GGTTAGGGT
16782196 ATGAAAATTA
Statistics
Matches: 427, Mismatches: 40, Indels: 20
0.88 0.08 0.04
Matches are distributed among these distances:
28 54 0.13
29 341 0.80
30 4 0.01
34 2 0.00
35 26 0.06
ACGTcount: A:0.31, C:0.01, G:0.26, T:0.42
Consensus pattern (29 bp):
GGTTAGGGTTTTTAATTAAATTAGGTTAG
Found at i:16782448 original size:21 final size:21
Alignment explanation
Indices: 16782424--16782468 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
16782414 TCTAACTTCT
*
16782424 GGTGGCGGTTGTTCTTCCTCC
1 GGTGGCGATTGTTCTTCCTCC
* * *
16782445 GGTGGTGATTGTTGTTCTTCC
1 GGTGGCGATTGTTCTTCCTCC
16782466 GGT
1 GGT
16782469 TCGGCGTCTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.02, C:0.20, G:0.36, T:0.42
Consensus pattern (21 bp):
GGTGGCGATTGTTCTTCCTCC
Found at i:16784556 original size:31 final size:30
Alignment explanation
Indices: 16784520--16784585 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
16784510 GCCATTGATG
**
16784520 AAAATATAAAAAAATTTAAAATTATTTTTAA
1 AAAATATAAAAAAA-TTAAAATTATTTAAAA
*
16784551 AAAATATAAAAAAATTGAAATTATTTAAAA
1 AAAATATAAAAAAATTAAAATTATTTAAAA
16784581 AAAAT
1 AAAAT
16784586 GAAATTGAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
30 18 0.56
31 14 0.44
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (30 bp):
AAAATATAAAAAAATTAAAATTATTTAAAA
Found at i:16784644 original size:22 final size:21
Alignment explanation
Indices: 16784619--16784669 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 21
16784609 TAATATGGAT
*
16784619 TTGAGAGATTTTTGGAATGAAA
1 TTGAGAGA-TTTTGGAAGGAAA
16784641 TTGAGAGGATTTTGGAAGGAAA
1 TTGAGA-GATTTTGGAAGGAAA
16784663 TTGAGAG
1 TTGAGAG
16784670 TTTAAGAGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 1 0.04
22 24 0.89
23 2 0.07
ACGTcount: A:0.35, C:0.00, G:0.33, T:0.31
Consensus pattern (21 bp):
TTGAGAGATTTTGGAAGGAAA
Found at i:16784694 original size:52 final size:52
Alignment explanation
Indices: 16784622--16784720 Score: 171
Period size: 52 Copynumber: 1.9 Consensus size: 52
16784612 TATGGATTTG
* * *
16784622 AGAGATTTTTGGAATGAAATTGAGAGGATTTTGGAAGGAAATTGAGAGTTTA
1 AGAGAATTTTGAAAGGAAATTGAGAGGATTTTGGAAGGAAATTGAGAGTTTA
16784674 AGAGAATTTTGAAAGGAAATTGAGAGGATTTTGGAAGGAAATTGAGA
1 AGAGAATTTTGAAAGGAAATTGAGAGGATTTTGGAAGGAAATTGAGA
16784721 TAGGATTTGT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.39, C:0.00, G:0.31, T:0.29
Consensus pattern (52 bp):
AGAGAATTTTGAAAGGAAATTGAGAGGATTTTGGAAGGAAATTGAGAGTTTA
Found at i:16784733 original size:27 final size:22
Alignment explanation
Indices: 16784674--16784720 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
16784664 TGAGAGTTTA
*
16784674 AGAGAATTTTGAAAGGAAATTG
1 AGAGGATTTTGAAAGGAAATTG
*
16784696 AGAGGATTTTGGAAGGAAATTG
1 AGAGGATTTTGAAAGGAAATTG
16784718 AGA
1 AGA
16784721 TAGGATTTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.43, C:0.00, G:0.32, T:0.26
Consensus pattern (22 bp):
AGAGGATTTTGAAAGGAAATTG
Found at i:16787457 original size:21 final size:22
Alignment explanation
Indices: 16787420--16787462 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
16787410 ATTATTTTTA
*
16787420 ATTTTTAAAATTCAAAAAATAT
1 ATTTTTAAAAATCAAAAAATAT
16787442 ATTTTTAAAAAT-AAAAAATAT
1 ATTTTTAAAAATCAAAAAATAT
16787463 TACATTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (22 bp):
ATTTTTAAAAATCAAAAAATAT
Found at i:16787470 original size:22 final size:22
Alignment explanation
Indices: 16787423--16787470 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
16787413 ATTTTTAATT
* **
16787423 TTTAAAATTCAAAAAATATATT
1 TTTAAAAATCAAAAAATATACA
16787445 TTTAAAAAT-AAAAAATATTACA
1 TTTAAAAATCAAAAAATA-TACA
16787467 TTTA
1 TTTA
16787471 TTAAAGTTAG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (22 bp):
TTTAAAAATCAAAAAATATACA
Found at i:16789697 original size:20 final size:20
Alignment explanation
Indices: 16789645--16789720 Score: 54
Period size: 20 Copynumber: 3.9 Consensus size: 20
16789635 TAAAATTTAA
*
16789645 AAAATTATAAAAAAATATTTTT
1 AAAATTAT-AAAAAA-ATTATT
*
16789667 AAAA--AT-TAAAAATTATT
1 AAAATTATAAAAAAATTATT
*
16789684 AAAATTATTAAAAAAA-TATG
1 AAAATTA-TAAAAAAATTATT
*
16789704 AGAATTA-AAAAAAATTA
1 AAAATTATAAAAAAATTA
16789721 ATATTTTAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
17 9 0.20
18 11 0.25
19 3 0.07
20 12 0.27
21 5 0.11
22 4 0.09
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (20 bp):
AAAATTATAAAAAAATTATT
Found at i:16789738 original size:9 final size:9
Alignment explanation
Indices: 16789723--16789752 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
16789713 AAAAATTAAT
16789723 ATTTTAAAA
1 ATTTTAAAA
*
16789732 TTTTTAAAA
1 ATTTTAAAA
16789741 ATTTTAAAA
1 ATTTTAAAA
16789750 ATT
1 ATT
16789753 AATTAAATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (9 bp):
ATTTTAAAA
Found at i:16790525 original size:30 final size:30
Alignment explanation
Indices: 16790466--16790529 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 30
16790456 TTTTCTTTAG
*
16790466 TTTTCTTCTCTTCTTCTTCGTTACCTTTCT
1 TTTTCTTCTCTTCTTATTCGTTACCTTTCT
*
16790496 TTTTCTTCTTCTTCATTATTC-TT-CTTTTCT
1 TTTTCTTC-TCTTC-TTATTCGTTACCTTTCT
16790526 TTTT
1 TTTT
16790530 ATTTTTGCTG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 18 0.60
31 7 0.23
32 5 0.17
ACGTcount: A:0.05, C:0.25, G:0.02, T:0.69
Consensus pattern (30 bp):
TTTTCTTCTCTTCTTATTCGTTACCTTTCT
Found at i:16802884 original size:26 final size:24
Alignment explanation
Indices: 16802851--16802911 Score: 70
Period size: 23 Copynumber: 2.5 Consensus size: 24
16802841 AGCCATGATT
*
16802851 GGTAAGCTCATTTCGAGCTAAAGAAC
1 GGTAAGCTCATATCGAGCT-AA-AAC
* *
16802877 GGTAAGCTC-TATCTAGCTGAAAC
1 GGTAAGCTCATATCGAGCTAAAAC
16802900 GGTAAGCTCATA
1 GGTAAGCTCATA
16802912 AGAGTTGATA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
23 12 0.39
24 3 0.10
25 7 0.23
26 9 0.29
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.25
Consensus pattern (24 bp):
GGTAAGCTCATATCGAGCTAAAAC
Found at i:16807217 original size:20 final size:20
Alignment explanation
Indices: 16807192--16807231 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
16807182 GATGCATAGT
* *
16807192 AGAGGCATCGAAGTGCAAAC
1 AGAGGCACCAAAGTGCAAAC
16807212 AGAGGCACCAAAGTGCAAAC
1 AGAGGCACCAAAGTGCAAAC
16807232 CTGTACAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.42, C:0.23, G:0.28, T:0.07
Consensus pattern (20 bp):
AGAGGCACCAAAGTGCAAAC
Found at i:16807540 original size:10 final size:10
Alignment explanation
Indices: 16807525--16807557 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
16807515 TATCACAAGT
*
16807525 TATATAAATA
1 TATATAATTA
16807535 TATATAATTA
1 TATATAATTA
16807545 TATATAATTA
1 TATATAATTA
16807555 TAT
1 TAT
16807558 TTATCTATAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (10 bp):
TATATAATTA
Found at i:16820079 original size:75 final size:75
Alignment explanation
Indices: 16819999--16820149 Score: 230
Period size: 75 Copynumber: 2.0 Consensus size: 75
16819989 ATTTTAACTC
* * * *
16819999 AATTAATTTTCATGTTTTGGGCTTTATCTTGTCCAAATATCTCCAAAACAGATAGCACAATGCTT
1 AATTAATTTTCATATTTTGGGCTTTAACTTATCCAAATATCTCAAAAACAGATAGCACAATGCTT
16820064 TTACTTTAAA
66 TTACTTTAAA
* * *
16820074 AATTAATTTTCATATTTTGGGTTTTAACTTATCCAAATATCTCAAAAACAGATAGCCCATTGCTT
1 AATTAATTTTCATATTTTGGGCTTTAACTTATCCAAATATCTCAAAAACAGATAGCACAATGCTT
*
16820139 TTATTTTAAA
66 TTACTTTAAA
16820149 A
1 A
16820150 TTTGCCAATT
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
75 68 1.00
ACGTcount: A:0.34, C:0.16, G:0.09, T:0.41
Consensus pattern (75 bp):
AATTAATTTTCATATTTTGGGCTTTAACTTATCCAAATATCTCAAAAACAGATAGCACAATGCTT
TTACTTTAAA
Found at i:16822425 original size:184 final size:183
Alignment explanation
Indices: 16822048--16822407 Score: 598
Period size: 186 Copynumber: 2.0 Consensus size: 183
16822038 ATGGCCTGCT
* *
16822048 ATGTGCATACAGATAGCCTTAGGGTTTAGTGACATCATTTTTTATTGAATTATTTGAAACTGTGT
1 ATGTGCATACAGATAGCATTAGGGTTTAGTGAAATCATTTTTTATTGAATTATTTGAAACTGTGT
16822113 ATGTCATTGAATTATTCAAATATGATACAAAATATTTTTAAATGTTGATTGAAATATGATTTTAT
66 ATGTCATTGAATTATTCAAATATGATACAAAATATTTTTAAATGTTGATTGAAATATGA-TTTAT
* *
16822178 TGTTTGTATCAAACTGAATTGTAGGTTTGGATTTTTGTAAACTTATGGTCTACC
130 TGTTTGTATCAAACTGAATTGCAGGTTTGGATTTATGTAAACTTATGGTCTACC
16822232 ATGTGCATACAGATAGCATTAGGGTTTAGTGATAAATCATTTTTTATTGAATTATTTGAAACTGT
1 ATGTGCATACAGATAGCATTAGGGTTTAGTG--AAATCATTTTTTATTGAATTATTTGAAACTGT
** * *
16822297 GTATGTCATTGAATTATTCAAATATGATTTATGAGTA-TTTTAAATGTTGATTGAAATATGA-TT
64 GTATGTCATTGAATTATTCAAATATGATACA-AAATATTTTTAAATGTTGATTGAAATATGATTT
16822360 ATTGTTTGTATCAAACTGAATTGCAGGTTTGGATTTATGTAAACTTAT
128 ATTGTTTGTATCAAACTGAATTGCAGGTTTGGATTTATGTAAACTTAT
16822408 TGTTCGCCAT
Statistics
Matches: 165, Mismatches: 8, Indels: 6
0.92 0.04 0.03
Matches are distributed among these distances:
184 78 0.47
186 84 0.51
187 3 0.02
ACGTcount: A:0.32, C:0.07, G:0.17, T:0.44
Consensus pattern (183 bp):
ATGTGCATACAGATAGCATTAGGGTTTAGTGAAATCATTTTTTATTGAATTATTTGAAACTGTGT
ATGTCATTGAATTATTCAAATATGATACAAAATATTTTTAAATGTTGATTGAAATATGATTTATT
GTTTGTATCAAACTGAATTGCAGGTTTGGATTTATGTAAACTTATGGTCTACC
Found at i:16827064 original size:44 final size:43
Alignment explanation
Indices: 16826900--16827057 Score: 165
Period size: 44 Copynumber: 3.6 Consensus size: 43
16826890 CACTTTAATT
* * * * *
16826900 TGCTTCACTGCAACTTTAGGGAGATAGGATTAGTAGCTTCAGCC
1 TGCTCCACTGCAACTTTAGAGAGATAGGATTTGTA-TTTCAACC
* *
16826944 TGCTCCACTGCAACTTTAGGGAGATAGGAATTGTATCTTCAACC
1 TGCTCCACTGCAACTTTAGAGAGATAGGATTTGTAT-TTCAACC
* * *
16826988 TGCCCCACTGCAACTTCAGAGGGATAAGG-TTTGTTATTTCAACC
1 TGCTCCACTGCAACTTTAGAGAGAT-AGGATTTG-TATTTCAACC
* *
16827032 TACTCTACTGCAACTTTAGAGAGATA
1 TGCTCCACTGCAACTTTAGAGAGATA
16827058 AGGTTTGATA
Statistics
Matches: 96, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
43 1 0.01
44 89 0.93
45 6 0.06
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (43 bp):
TGCTCCACTGCAACTTTAGAGAGATAGGATTTGTATTTCAACC
Found at i:16827238 original size:327 final size:329
Alignment explanation
Indices: 16826804--16827398 Score: 760
Period size: 327 Copynumber: 1.8 Consensus size: 329
16826794 TTGCTTCAAC
* * *
16826804 CTACTCCATTACGACCTCAGGGAGATAAGATTTGATATGATAAGATTTAATCCAACCCTCTGCAA
1 CTACTCCACTACAACCTCAGGGAGATAAGACTTGATATGATAAGATTTAATCCAACCCTCTGCAA
** * * *
16826869 CTTCAAAGGTATAGGATTCATCACTTTAATTTGCTTCACTGCAACTTTAGGGAGATAGGA-TTAG
66 CTTCAAAGGTATAGGATTCATCACTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGACTT-G
* * * *
16826933 TA-GCTTCAGCCTGCTCCACTGCAACTTTAGGGAGAT-AGGAATTGTA-T-CTTCAACCTGCCCC
130 CATGC-TCAACCTGCCCCACTGCAACTTCAGGGAGATAAGG--TT-TATTACTTCAACCTGCCCC
* * *
16826994 ACTGCAACTTCAGAGGGATAAGG-TTTGTTAT-T-TCAACCTACTCTACTGCAACTTTAGAGAGA
191 ACTGCAACTACAGAGAGAT-AGGATTTGTTATGTGT-AACCTACTCAACTGCAACTTTAGAGAGA
16827056 TAAGGTTTGATATTATCTGCTCTACTGCAACTTCGGAGATATAAGATTCGATTTGATAAGATCCG
254 TAAGGTTTGATATTATCTGCTCTACTGCAACTTCGGAGATATAAGATTCGATTTGATAAGATCCG
16827121 CTATCTACAGT
319 CTATCTACAGT
* * * *
16827132 CTACTCCACTACAACTTTAGGGAGATAAGACTTGTTATGGTAA-ATTTAATCCAA-CCTACTGCA
1 CTACTCCACTACAACCTCAGGGAGATAAGACTTGATATGATAAGATTTAATCCAACCCT-CTGCA
* * * **
16827195 ACTTCAGAGGTATAGGATTCATTATTTTGGTCCGCTCCACTGCAACTTCAGGGAGATAAGACTTG
65 ACTTCAAAGGTATAGGATTCATCACTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGACTTG
* * *
16827260 CATGCTCAACCTGCCCCACTGCAACTTCAGGGGGATAAGGTTTATTACTTCAACCTGCTCTACTG
130 CATGCTCAACCTGCCCCACTGCAACTTCAGGGAGATAAGGTTTATTACTTCAACCTGCCCCACTG
* * *
16827325 CAACTACAGAGAGATAGGATTTTGTTATGGTGTGACTTGCTCAACTGCAACTTTAGAGAGATAAG
195 CAACTACAGAGAGATAGGA-TTTGTTAT-GTGTAACCTACTCAACTGCAACTTTAGAGAGATAAG
16827390 GTTTGATAT
258 GTTTGATAT
16827399 CTTCAATCTA
Statistics
Matches: 226, Mismatches: 30, Indels: 20
0.82 0.11 0.07
Matches are distributed among these distances:
325 2 0.01
326 9 0.04
327 125 0.55
328 51 0.23
330 38 0.17
331 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (329 bp):
CTACTCCACTACAACCTCAGGGAGATAAGACTTGATATGATAAGATTTAATCCAACCCTCTGCAA
CTTCAAAGGTATAGGATTCATCACTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGACTTGC
ATGCTCAACCTGCCCCACTGCAACTTCAGGGAGATAAGGTTTATTACTTCAACCTGCCCCACTGC
AACTACAGAGAGATAGGATTTGTTATGTGTAACCTACTCAACTGCAACTTTAGAGAGATAAGGTT
TGATATTATCTGCTCTACTGCAACTTCGGAGATATAAGATTCGATTTGATAAGATCCGCTATCTA
CAGT
Found at i:16827589 original size:44 final size:44
Alignment explanation
Indices: 16827505--16827605 Score: 114
Period size: 44 Copynumber: 2.3 Consensus size: 44
16827495 CTCTACTACC
* * * *
16827505 ACTTCAGAGAGATAAGATCCATCATTTTAATCGGCTCCACTGAA
1 ACTTCAGAGAGATAAGATCCATAATTTCAACCGGCCCCACTGAA
* * *
16827549 ACTTCAGAGAGATAAGA-CTCGTAATTTCAACCTGCCCCACTGCA
1 ACTTCAGAGAGATAAGATC-CATAATTTCAACCGGCCCCACTGAA
*
16827593 ACTTCAGGGAGAT
1 ACTTCAGAGAGAT
16827606 GAGGTTTGAT
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
43 1 0.02
44 47 0.98
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.25
Consensus pattern (44 bp):
ACTTCAGAGAGATAAGATCCATAATTTCAACCGGCCCCACTGAA
Found at i:16827644 original size:85 final size:86
Alignment explanation
Indices: 16827538--16827841 Score: 301
Period size: 85 Copynumber: 3.5 Consensus size: 86
16827528 ATTTTAATCG
* *
16827538 GCTCCACTGAAACTTCAGAGAGATAAGACTC-GTAATTTCAACCTGCCCCACTGCAACTTCAGGG
1 GCTCCACTGCAACTTCAGAGAGATAAGACTCTGTAATTTCAACCTGCCCCACTGCAACTTTAGGG
16827602 AGATGAGGTTTGATATGATCT
66 AGATGAGGTTTGATATGATCT
* * **
16827623 GCTCTACTGCAACTTCAGAGAGATAAGAC-CTGTAATTTATAGCTTCAATCTGTTCCACTGCAAC
1 GCTCCACTGCAACTTCAGAGAGATAAGACTCTGT-A---AT---TTCAACCTGCCCCACTGCAAC
* * * * * * *
16827687 TTTAGGGAAATAAGATTCGCTTCCTTCAGTCT
59 TTTAGGGAGATGAGGTTTG-AT--ATGA-TCT
* * * * * *
16827719 GCTCCACTGCAACTTCAGAGAGGTGAGACT-TGTATTTTCAACCTGCCCCACTACAACTTTAAGA
1 GCTCCACTGCAACTTCAGAGAGATAAGACTCTGTAATTTCAACCTGCCCCACTGCAACTTTAGGG
16827783 AGATGAGGTTTGATATGATCT
66 AGATGAGGTTTGATATGATCT
*
16827804 GCTCTACTGCAACTTCAGAGAGATAAGA-TCTGTAATTT
1 GCTCCACTGCAACTTCAGAGAGATAAGACTCTGTAATTT
16827842 ATCGCTTTAA
Statistics
Matches: 171, Mismatches: 34, Indels: 28
0.73 0.15 0.12
Matches are distributed among these distances:
84 2 0.01
85 64 0.37
86 3 0.02
88 1 0.01
89 32 0.19
92 33 0.19
93 1 0.01
95 3 0.02
96 32 0.19
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (86 bp):
GCTCCACTGCAACTTCAGAGAGATAAGACTCTGTAATTTCAACCTGCCCCACTGCAACTTTAGGG
AGATGAGGTTTGATATGATCT
Found at i:16827738 original size:96 final size:94
Alignment explanation
Indices: 16827620--16827911 Score: 271
Period size: 96 Copynumber: 3.2 Consensus size: 94
16827610 TTTGATATGA
*
16827620 TCTGCTCTACTGCAACTTCAGAGAGATAAGACCTGTAATTTATAGCTTCAATCTGTTCCACTGCA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGACCTGTAATTTAT-GCTTCAATCTGTTCCACTGCA
16827685 ACTTTAGGGAAATAAGATTCGCTTCCTTCAG
65 ACTTTAGGGAAATAAGATTCGCTT-CTTCAG
* * * * ** *
16827716 TCTGCTCCACTGCAACTTCAGAGAGGTGAGACTTGT-A--T-T--TTCAACCTGCCCCACTACAA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGACCTGTAATTTATGCTTCAATCTGTTCCACTGCAA
* * * * * * *
16827775 CTTTA-AGAAGATGAGGTTTG-AT-ATGA-
66 CTTTAGGGAA-ATAAGATTCGCTTCTTCAG
* * *
16827801 TCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTATCGCTTTAATCTGTTCCACTGCA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGACCTGTAATTTAT-GCTTCAATCTGTTCCACTGCA
* * *
16827866 ACTTCAGGGAAATAAGATTCGCTATCTGCTG
65 ACTTTAGGGAAATAAGATTCGCT-TCTTCAG
*
16827897 CCTGCTCCACTGCAA
1 TCTGCTCCACTGCAA
16827912 ACTTAGGGAG
Statistics
Matches: 146, Mismatches: 37, Indels: 26
0.70 0.18 0.12
Matches are distributed among these distances:
85 31 0.21
86 3 0.02
88 5 0.03
89 29 0.20
92 27 0.18
93 4 0.03
94 1 0.01
95 1 0.01
96 45 0.31
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (94 bp):
TCTGCTCCACTGCAACTTCAGAGAGATAAGACCTGTAATTTATGCTTCAATCTGTTCCACTGCAA
CTTTAGGGAAATAAGATTCGCTTCTTCAG
Found at i:16827842 original size:181 final size:181
Alignment explanation
Indices: 16827538--16827911 Score: 588
Period size: 181 Copynumber: 2.1 Consensus size: 181
16827528 ATTTTAATCG
* * * *
16827538 GCTCCACTGAAACTTCAGAGAGATAAGACTCGTAATTTCAACCTGCCCCACTGCAACTTCAGGGA
1 GCTCCACTGCAACTTCAGAGAGATAAGACTCGTAATTTCAACCTGCCCCACTACAACTTCAAGAA
16827603 GATGAGGTTTGATATGATCTGCTCTACTGCAACTTCAGAGAGATAAGACCTGTAATTTATAGCTT
66 GATGAGGTTTGATATGATCTGCTCTACTGCAACTTCAGAGAGATAAGACCTGTAATTTATAGCTT
* * *
16827668 CAATCTGTTCCACTGCAACTTTAGGGAAATAAGATTCGCT-TCCTTCAGTCT
131 CAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTAT-CTGCAGCCT
* * * * *
16827719 GCTCCACTGCAACTTCAGAGAGGTGAGACTTGTATTTTCAACCTGCCCCACTACAACTTTAAGAA
1 GCTCCACTGCAACTTCAGAGAGATAAGACTCGTAATTTCAACCTGCCCCACTACAACTTCAAGAA
* *
16827784 GATGAGGTTTGATATGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTATCGCTT
66 GATGAGGTTTGATATGATCTGCTCTACTGCAACTTCAGAGAGATAAGACCTGTAATTTATAGCTT
* *
16827849 TAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTGCTGCCT
131 CAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTGCAGCCT
16827900 GCTCCACTGCAA
1 GCTCCACTGCAA
16827912 ACTTAGGGAG
Statistics
Matches: 176, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
181 175 0.99
182 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.30
Consensus pattern (181 bp):
GCTCCACTGCAACTTCAGAGAGATAAGACTCGTAATTTCAACCTGCCCCACTACAACTTCAAGAA
GATGAGGTTTGATATGATCTGCTCTACTGCAACTTCAGAGAGATAAGACCTGTAATTTATAGCTT
CAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTGCAGCCT
Found at i:16828947 original size:45 final size:45
Alignment explanation
Indices: 16828895--16828981 Score: 120
Period size: 45 Copynumber: 1.9 Consensus size: 45
16828885 AGTTCGAAAT
* *
16828895 GAATAAATTAATGAAGATAACAAATTTTTCCAAGATACGAAATGA
1 GAATAAATTAATCAAGATAACAAATTTTTCCAAAATACGAAATGA
* ** *
16828940 GAATAAATTGATCAAGATGGCATATTTTTCCAAAATACGAAA
1 GAATAAATTAATCAAGATAACAAATTTTTCCAAAATACGAAA
16828982 ACGAATAAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.48, C:0.10, G:0.14, T:0.28
Consensus pattern (45 bp):
GAATAAATTAATCAAGATAACAAATTTTTCCAAAATACGAAATGA
Found at i:16829275 original size:5 final size:5
Alignment explanation
Indices: 16829261--16829330 Score: 51
Period size: 5 Copynumber: 14.8 Consensus size: 5
16829251 GGCCTCTACT
* *
16829261 TTTTC TTTTTC TTTTC -TTT- TTTTC TCTTC TCTT- TTTTC TTTTC -TTT-
1 TTTTC -TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC
* * *
16829307 TATTC TTTTC TTTTT TTTTG TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTT
16829331 TTTAACATTC
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
4 14 0.26
5 34 0.64
6 5 0.09
ACGTcount: A:0.01, C:0.16, G:0.01, T:0.81
Consensus pattern (5 bp):
TTTTC
Found at i:16829284 original size:13 final size:13
Alignment explanation
Indices: 16829266--16829323 Score: 89
Period size: 13 Copynumber: 4.4 Consensus size: 13
16829256 CTACTTTTTC
16829266 TTTTTCTTTTCTT
1 TTTTTCTTTTCTT
*
16829279 TTTTTCTCTTCTCT
1 TTTTTCTTTTCT-T
16829293 TTTTTCTTTTCTT
1 TTTTTCTTTTCTT
*
16829306 TTATTCTTTTCTT
1 TTTTTCTTTTCTT
16829319 TTTTT
1 TTTTT
16829324 TTGTTTTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
13 28 0.70
14 12 0.30
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTTTCTTTTCTT
Found at i:16829299 original size:27 final size:27
Alignment explanation
Indices: 16829266--16829324 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 27
16829256 CTACTTTTTC
*
16829266 TTTTTCTTTTCTTTTTTTCTCTTCTCT
1 TTTTTCTTTTCTTTTATTCTCTTCTCT
* *
16829293 TTTTTCTTTTCTTTTATTCTTTTCTTT
1 TTTTTCTTTTCTTTTATTCTCTTCTCT
16829320 TTTTT
1 TTTTT
16829325 TGTTTTTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (27 bp):
TTTTTCTTTTCTTTTATTCTCTTCTCT
Found at i:16829312 original size:22 final size:22
Alignment explanation
Indices: 16829269--16829325 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
16829259 CTTTTTCTTT
*
16829269 TTCTTTTCTTTTTTTCTCTTCTC
1 TTCTTTTCTTTTTTT-TATTCTC
*
16829292 TT-TTTTCTTTTCTTTTATTCTT
1 TTCTTTTCTTTT-TTTTATTCTC
16829314 TTCTTTT-TTTTT
1 TTCTTTTCTTTTT
16829326 GTTTTTTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
21 1 0.03
22 20 0.67
23 9 0.30
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.81
Consensus pattern (22 bp):
TTCTTTTCTTTTTTTTATTCTC
Found at i:16829333 original size:18 final size:18
Alignment explanation
Indices: 16829261--16829333 Score: 58
Period size: 18 Copynumber: 3.9 Consensus size: 18
16829251 GGCCTCTACT
*
16829261 TTTTCTTTT-TCTTTTCTTT
1 TTTTCTTTTAT-TTTT-TTC
* *
16829280 TTTTCTCTTCTCTTTTTTC
1 TTTTCTTTTAT-TTTTTTC
*
16829299 TTTTCTTTTATTCTTTTC
1 TTTTCTTTTATTTTTTTC
* *
16829317 TTTTTTTTTGTTTTTTT
1 TTTTCTTTTATTTTTTT
16829334 AACATTCTTT
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
18 20 0.44
19 19 0.42
20 6 0.13
ACGTcount: A:0.01, C:0.15, G:0.01, T:0.82
Consensus pattern (18 bp):
TTTTCTTTTATTTTTTTC
Found at i:16836658 original size:3 final size:3
Alignment explanation
Indices: 16836650--16836674 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
16836640 TCGCAGCAAG
16836650 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
16836675 CTATAGTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:16837309 original size:16 final size:15
Alignment explanation
Indices: 16837269--16837309 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
16837259 CCATATTGAA
* *
16837269 TATTTTTTATATATT
1 TATTTTTAATATAAT
16837284 TATTTTTAATATAAT
1 TATTTTTAATATAAT
16837299 TATTTTCTAAT
1 TATTTT-TAAT
16837310 TTTGAGAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 19 0.83
16 4 0.17
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (15 bp):
TATTTTTAATATAAT
Found at i:16839722 original size:19 final size:19
Alignment explanation
Indices: 16839700--16839738 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
16839690 TTTTCATGTA
*
16839700 ATCATCATACATACTTATG
1 ATCACCATACATACTTATG
* *
16839719 ATCACCATGCATGCTTATG
1 ATCACCATACATACTTATG
16839738 A
1 A
16839739 ATATTCTCCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.33
Consensus pattern (19 bp):
ATCACCATACATACTTATG
Found at i:16841566 original size:45 final size:44
Alignment explanation
Indices: 16841479--16841632 Score: 132
Period size: 45 Copynumber: 3.4 Consensus size: 44
16841469 ATATAGTACT
* *
16841479 CGGTGTAATCAGCACATAGCAACCACCTTTATACTCAATGGTA-C
1 CGGTGAAATCAGCACATAGCAATCA-CTTTATACTCAATGGTATC
* * * *
16841523 ATGGTGAATTCAGCACATAACAATCACTTATATAAC-CATTGGTATC
1 -CGGTGAAATCAGCACATAGCAATCACTT-TAT-ACTCAATGGTATC
** * **
16841569 CGGTGAAATCAGCACATAGCAATCACCTTTATTTTCATTAATATC
1 CGGTGAAATCAGCACATAGCAATCA-CTTTATACTCAATGGTATC
* *
16841614 TGGTGGAATCAGCACATAG
1 CGGTGAAATCAGCACATAG
16841633 TATCCACTTA
Statistics
Matches: 89, Mismatches: 15, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
44 3 0.03
45 80 0.90
46 6 0.07
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.29
Consensus pattern (44 bp):
CGGTGAAATCAGCACATAGCAATCACTTTATACTCAATGGTATC
Found at i:16842191 original size:50 final size:48
Alignment explanation
Indices: 16842071--16842252 Score: 233
Period size: 50 Copynumber: 3.7 Consensus size: 48
16842061 CACATATCGA
* * * *
16842071 TGCCGATTCCATGTCCCAGACATGGTCTTACACTGGCACTCATC-TCA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACTCCTCGTCG
* * *
16842118 AGCCGATGCCATGTCCCAGACATGGTCCTACACTGACTCTCCTCTGTTCG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACTCCTC-G-TCG
*
16842168 TGCCGATGCCATGTCCCAGACATGGTCTTAGACT-AGCACTCCTCGGTCTG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGA-CACTCCTC-GTC-G
16842218 TGCCGATGCCATGTCCCAGACATGGTCTTACACTG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTG
16842253 GCACACTCAT
Statistics
Matches: 116, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
47 38 0.33
49 3 0.03
50 75 0.65
ACGTcount: A:0.19, C:0.34, G:0.21, T:0.26
Consensus pattern (48 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACTCCTCGTCG
Found at i:16842207 original size:97 final size:99
Alignment explanation
Indices: 16842071--16842252 Score: 278
Period size: 97 Copynumber: 1.8 Consensus size: 99
16842061 CACATATCGA
* *
16842071 TGCCGATTCCATGTCCCAGACATGGTCTTACACTGGCACTCATC-TC-AAGCCGATGCCATGTCC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATCGTCTAAGCCGATGCCATGTCC
16842134 CAGACATGGTCCTACACTGACTCTCCTCTGTTCG
66 CAGACATGGTCCTACACTGACTCTCCTCTGTTCG
* * **
16842168 TGCCGATGCCATGTCCCAGACATGGTCTTAGACTAGCACTCCTCGGTCTGTGCCGATGCCATGTC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATC-GTCTAAGCCGATGCCATGTC
*
16842233 CCAGACATGGTCTTACACTG
65 CCAGACATGGTCCTACACTG
16842253 GCACACTCAT
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
97 40 0.53
99 2 0.03
100 33 0.44
ACGTcount: A:0.19, C:0.34, G:0.21, T:0.26
Consensus pattern (99 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATCGTCTAAGCCGATGCCATGTCC
CAGACATGGTCCTACACTGACTCTCCTCTGTTCG
Found at i:16845477 original size:43 final size:43
Alignment explanation
Indices: 16845391--16845538 Score: 174
Period size: 43 Copynumber: 3.5 Consensus size: 43
16845381 CCGAGATTAA
* * * *
16845391 GTGTAAGACCATATCTAGGATA-TGACATCGATATGAGAATTC
1 GTGTAAGACCATATCTGGGACATTGGCATCGATATGAGATTTC
* *
16845433 GTGTAAGACCATGTCTGGGACATTGGCATCGATATGTGATTTC
1 GTGTAAGACCATATCTGGGACATTGGCATCGATATGAGATTTC
** * *
16845476 GTGTAAGACCATGGCTGGG-CTATTGGCATCGATACGAGATTAC
1 GTGTAAGACCATATCTGGGAC-ATTGGCATCGATATGAGATTTC
*
16845519 ATGTAAGACCATATCTGGGA
1 GTGTAAGACCATATCTGGGA
16845539 TATGACATTG
Statistics
Matches: 90, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
42 20 0.22
43 70 0.78
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.28
Consensus pattern (43 bp):
GTGTAAGACCATATCTGGGACATTGGCATCGATATGAGATTTC
Found at i:16852116 original size:16 final size:16
Alignment explanation
Indices: 16852095--16852127 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
16852085 ATTGAAAAAA
16852095 TAAAT-ATAAATGACAT
1 TAAATAATAAATG-CAT
16852111 TAAATAATAAATGCAT
1 TAAATAATAAATGCAT
16852127 T
1 T
16852128 CTTTCATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.33
Consensus pattern (16 bp):
TAAATAATAAATGCAT
Found at i:16853608 original size:23 final size:20
Alignment explanation
Indices: 16853582--16853640 Score: 55
Period size: 23 Copynumber: 2.7 Consensus size: 20
16853572 TAGTTTTTTA
16853582 AATATATAAAAAAATAAAGAGAT
1 AATATATAAAAAAAT--AGA-AT
* *
16853605 AATAAATAAATAAATAGAAT
1 AATATATAAAAAAATAGAAT
16853625 AACGTATATAAAAAAA
1 AA--TATATAAAAAAA
16853641 GTCTATAAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
20 4 0.13
21 3 0.10
22 10 0.33
23 13 0.43
ACGTcount: A:0.69, C:0.02, G:0.07, T:0.22
Consensus pattern (20 bp):
AATATATAAAAAAATAGAAT
Found at i:16855465 original size:44 final size:44
Alignment explanation
Indices: 16855417--16855776 Score: 333
Period size: 44 Copynumber: 8.1 Consensus size: 44
16855407 AGAGGTATAG
* * * *
16855417 GATTTGTCGCTTCAATCTGCTCTACTACAACTTCAGGGAGATTA
1 GATTTGTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAA
* * * * *
16855461 GATTTGTGGGTTTAATCTACTCCACTACAACTTCAAGGAGATAA
1 GATTTGTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAA
* ** * * * * *
16855505 GATTTACTATCTTCAATTTGATTCAGTGTAACTTCAGGGAGATAA
1 GATTT-GTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAA
* * *
16855550 GATTTGTGGCTTTAATGTGCTCCACTGCAACTTCAAGGAGATAA
1 GATTTGTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAA
** ** *
16855594 GATTCACTATCTTCAATCTGCTCCACTGTAACTTCAGGGAGATAA
1 GATT-TGTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAA
* * * * **
16855639 GATTTATGGCTTTAATCTTCTCTACTGCAACTTTTGGGAGATAA
1 GATTTGTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAA
*** * * * *
16855683 GATTTGTCATTTCAATCTTCTCCACTGCAATTTTAGAGAGATAA
1 GATTTGTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAA
* * *
16855727 GATTTGTTGTTTCAATCTACTCCACTGCAACTTCAGGGAGATAA
1 GATTTGTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAA
16855771 GATTTG
1 GATTTG
16855777 CTATAATGAC
Statistics
Matches: 251, Mismatches: 63, Indels: 4
0.79 0.20 0.01
Matches are distributed among these distances:
44 184 0.73
45 67 0.27
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (44 bp):
GATTTGTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAA
Found at i:16855553 original size:89 final size:89
Alignment explanation
Indices: 16855426--16855780 Score: 403
Period size: 89 Copynumber: 4.0 Consensus size: 89
16855416 GGATTTGTCG
* * ** * * *
16855426 CTTCAATCTGCTCTACTACAACTTCAGGGAGATTAGATTTGTGGGTTTAATCTACTCCACTACAA
1 CTTCAATTTGCTCCACTGTAACTTCAGGGAGATAAGATTTGTGGCTTTAATCTACTCCACTGCAA
16855491 CTTCAAGGAGATAAGATTTACTAT
66 CTTCAAGGAGATAAGATTTACTAT
* * * * *
16855515 CTTCAATTTGATTCAGTGTAACTTCAGGGAGATAAGATTTGTGGCTTTAATGTGCTCCACTGCAA
1 CTTCAATTTGCTCCACTGTAACTTCAGGGAGATAAGATTTGTGGCTTTAATCTACTCCACTGCAA
*
16855580 CTTCAAGGAGATAAGATTCACTAT
66 CTTCAAGGAGATAAGATTTACTAT
* * * *
16855604 CTTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTATGGCTTTAATCTTCTCTACTGCAA
1 CTTCAATTTGCTCCACTGTAACTTCAGGGAGATAAGATTTGTGGCTTTAATCTACTCCACTGCAA
*** *
16855669 CTTTTGGGAGATAAGATTT-GTCAT
66 CTTCAAGGAGATAAGATTTACT-AT
* * * * *
16855693 -TTCAATCTT-CTCCACTGCAATTTTAGAGAGATAAGATTTGTTG-TTTCAATCTACTCCACTGC
1 CTTCAAT-TTGCTCCACTGTAACTTCAGGGAGATAAGATTTGTGGCTTT-AATCTACTCCACTGC
* *
16855755 AACTTCAGGGAGATAAGATTTGCTAT
64 AACTTCAAGGAGATAAGATTTACTAT
16855781 AATGACTTCA
Statistics
Matches: 224, Mismatches: 38, Indels: 9
0.83 0.14 0.03
Matches are distributed among these distances:
87 3 0.01
88 69 0.31
89 152 0.68
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.35
Consensus pattern (89 bp):
CTTCAATTTGCTCCACTGTAACTTCAGGGAGATAAGATTTGTGGCTTTAATCTACTCCACTGCAA
CTTCAAGGAGATAAGATTTACTAT
Found at i:16860634 original size:7 final size:7
Alignment explanation
Indices: 16860622--16860677 Score: 94
Period size: 7 Copynumber: 8.0 Consensus size: 7
16860612 AGTCGCGCTC
16860622 TTCTTCT
1 TTCTTCT
16860629 TTCTTCT
1 TTCTTCT
* *
16860636 TTATTAT
1 TTCTTCT
16860643 TTCTTCT
1 TTCTTCT
16860650 TTCTTCT
1 TTCTTCT
16860657 TTCTTCT
1 TTCTTCT
16860664 TTCTTCT
1 TTCTTCT
16860671 TTCTTCT
1 TTCTTCT
16860678 CCAGCTCTCT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 45 1.00
ACGTcount: A:0.04, C:0.25, G:0.00, T:0.71
Consensus pattern (7 bp):
TTCTTCT
Found at i:16864870 original size:29 final size:30
Alignment explanation
Indices: 16864811--16864868 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 30
16864801 TCCGAGTCTT
*
16864811 GGGGCAAAAATGTAATTATGCAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
16864841 GGGGC-AAAATCGTAAATT-TGAAAAAGTT
1 GGGGCAAAAAT-GT-AATTATGAAAAAGTT
16864869 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 5 0.20
30 16 0.64
31 4 0.16
ACGTcount: A:0.43, C:0.07, G:0.24, T:0.26
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:16865097 original size:13 final size:13
Alignment explanation
Indices: 16865079--16865110 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
16865069 TTTTCAGCAA
16865079 TTATGAATTTATT
1 TTATGAATTTATT
16865092 TTATGAATTTATT
1 TTATGAATTTATT
*
16865105 TGATGA
1 TTATGA
16865111 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:16865318 original size:50 final size:50
Alignment explanation
Indices: 16865205--16865453 Score: 300
Period size: 50 Copynumber: 4.8 Consensus size: 50
16865195 ATTTGGGTAA
* *
16865205 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC--AAGA-C--G
*
16865261 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGACG
* * *
16865311 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGACG
* * * * *
16865361 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACCAACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGACG
** * *
16865411 AGAACATCCCATGTAAGACCATGTCTAGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
16865454 TGTTATTATC
Statistics
Matches: 174, Mismatches: 18, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
50 95 0.55
51 33 0.19
52 1 0.01
53 3 0.02
55 2 0.01
56 40 0.23
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGACG
Found at i:16865403 original size:100 final size:103
Alignment explanation
Indices: 16865205--16865454 Score: 344
Period size: 100 Copynumber: 2.4 Consensus size: 103
16865195 ATTTGGGTAA
16865205 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC-TGAGA--ATGAGAGGTCCC
* * * *
16865270 ATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGACG
63 ATATAAGACCATGTCTGGGACATGGCATGGGCACCAACACG
* * *
16865311 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GAG-ATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTGAGAATGAGAGGTCCCATA
*
16865373 TAAGACCATGTCTGGGACATGGCATGGGCACCAACATG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCAACACG
* * *
16865411 AGAACATCCCATGTAAGACCATGTCTAGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
16865455 GTTATTATCA
Statistics
Matches: 130, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
100 49 0.38
101 36 0.28
103 3 0.02
105 2 0.02
106 40 0.31
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTGAGAATGAGAGGTCCCATA
TAAGACCATGTCTGGGACATGGCATGGGCACCAACACG
Found at i:16871862 original size:29 final size:29
Alignment explanation
Indices: 16871829--16871887 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
16871819 TGAAGAGAGG
*
16871829 TCTTAGGACCAAGATAGCTAGTACCGCAT
1 TCTTAGGACCAAGATAACTAGTACCGCAT
*
16871858 TCTTAGTACCAAGATAACTAGTACCGCAT
1 TCTTAGGACCAAGATAACTAGTACCGCAT
16871887 T
1 T
16871888 AGTGAGTGCG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (29 bp):
TCTTAGGACCAAGATAACTAGTACCGCAT
Found at i:16872018 original size:31 final size:31
Alignment explanation
Indices: 16871977--16872056 Score: 76
Period size: 31 Copynumber: 2.6 Consensus size: 31
16871967 AAAAATTTTA
* *
16871977 AAAATTTTAAAATATTTATATTTTAAT-ATTT
1 AAAATATTAAAATATTTATA-TTAAATAATTT
* *
16872008 AAAATATT-AAATAATAATATTAAATAAATTT
1 AAAATATTAAAATATTTATATTAAAT-AATTT
*
16872039 TAAATA-TAAAATATTTAT
1 AAAATATTAAAATATTTAT
16872057 CAATTATACA
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
29 5 0.13
30 10 0.26
31 24 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (31 bp):
AAAATATTAAAATATTTATATTAAATAATTT
Found at i:16872028 original size:13 final size:13
Alignment explanation
Indices: 16872010--16872034 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16872000 TAATATTTAA
16872010 AATATTAAATAAT
1 AATATTAAATAAT
16872023 AATATTAAATAA
1 AATATTAAATAA
16872035 ATTTTAAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
AATATTAAATAAT
Found at i:16872792 original size:11 final size:11
Alignment explanation
Indices: 16872778--16872803 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
16872768 AAAAATAAAA
16872778 AAAAGTATTTT
1 AAAAGTATTTT
16872789 AAAAGTATTTT
1 AAAAGTATTTT
16872800 AAAA
1 AAAA
16872804 TTAAAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (11 bp):
AAAAGTATTTT
Found at i:16873135 original size:20 final size:20
Alignment explanation
Indices: 16873110--16873148 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
16873100 GAGGGGAATT
*
16873110 TTTTAT-TTATTATAATTTAG
1 TTTTATATT-TTAAAATTTAG
16873130 TTTTATATTTTAAAATTTA
1 TTTTATATTTTAAAATTTA
16873149 AAGTTTGTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (20 bp):
TTTTATATTTTAAAATTTAG
Found at i:16875363 original size:18 final size:18
Alignment explanation
Indices: 16875337--16875376 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
16875327 TTACCGATTC
*
16875337 AAAACAAATAA-ATTATTA
1 AAAAAAAATAAGATTA-TA
16875355 AAAAAAAATAAGATTATA
1 AAAAAAAATAAGATTATA
16875373 AAAA
1 AAAA
16875377 TTGGTTCTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.23
Consensus pattern (18 bp):
AAAAAAAATAAGATTATA
Found at i:16875475 original size:77 final size:79
Alignment explanation
Indices: 16875334--16875485 Score: 202
Period size: 77 Copynumber: 1.9 Consensus size: 79
16875324 TGGTTACCGA
* *
16875334 TTCAAAACAAATAAATTATTAAAAAAAAATAAGATTATAAAAATTGGTTCTACTACCAATTCAAA
1 TTCAAAACAAATAAATTATT-AAAAAAAATAAGA-TATAAAAATTGGTTCAACGACCAATTCAAA
16875399 TGGTTTTTTAGCTTGG
64 TGGTTTTTTAGCTTGG
* * * *
16875415 TTCAAATCAAATAAATTATT-AAAAAATTGAA-A-ATAAAAATTGTTTCAACGGCCAATTCAAAT
1 TTCAAAACAAATAAATTATTAAAAAAAAT-AAGATATAAAAATTGGTTCAACGACCAATTCAAAT
16875477 GGTTTTTTA
65 GGTTTTTTA
16875486 ACCCTATTCA
Statistics
Matches: 64, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
77 35 0.55
79 8 0.12
80 2 0.03
81 19 0.30
ACGTcount: A:0.46, C:0.10, G:0.09, T:0.35
Consensus pattern (79 bp):
TTCAAAACAAATAAATTATTAAAAAAAATAAGATATAAAAATTGGTTCAACGACCAATTCAAATG
GTTTTTTAGCTTGG
Found at i:16875955 original size:16 final size:16
Alignment explanation
Indices: 16875934--16876001 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
16875924 TTTGGTTCGC
16875934 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
16875950 TGTATTGGATTAGAAG
1 TGTATTGGATTAGAGG
16875966 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
16875982 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
16875998 TGTA
1 TGTA
16876002 ATAGCAAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.26, C:0.00, G:0.35, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:16876258 original size:18 final size:17
Alignment explanation
Indices: 16876237--16876271 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
16876227 TTATTATTAA
*
16876237 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
16876255 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
16876272 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:16876325 original size:157 final size:157
Alignment explanation
Indices: 16876124--16876408 Score: 516
Period size: 157 Copynumber: 1.8 Consensus size: 157
16876114 TAGAATACCC
*
16876124 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAAAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* * *
16876189 TTATCAATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
16876254 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
*
16876281 TTAGCAAAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAAAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
*
16876346 ATATCAATAATAAATAATTTAATCATATTTAAATATAATTATTATTAAATATATTATAATTAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAA
16876409 TAAGGAACCA
Statistics
Matches: 122, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
157 122 1.00
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (157 bp):
TTAGCAAAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:16876407 original size:15 final size:16
Alignment explanation
Indices: 16876374--16876408 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
16876364 TTAATCATAT
*
16876374 TTAAATATAATTATTA
1 TTAAATATAATTATAA
16876390 TTAAATAT-ATTATAA
1 TTAAATATAATTATAA
16876405 TTAA
1 TTAA
16876409 TAAGGAACCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TTAAATATAATTATAA
Found at i:16879650 original size:28 final size:28
Alignment explanation
Indices: 16879619--16879673 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
16879609 GCAAATCGGT
*
16879619 AGAAAAGAAAAGAAAATAAACAGAGGGC
1 AGAAAAGAAAAGAAAAGAAACAGAGGGC
*
16879647 AGAAAAGAAAAGAAAAGAAACGGAGGG
1 AGAAAAGAAAAGAAAAGAAACAGAGGG
16879674 AGCAAATCGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.64, C:0.05, G:0.29, T:0.02
Consensus pattern (28 bp):
AGAAAAGAAAAGAAAAGAAACAGAGGGC
Found at i:16884335 original size:19 final size:21
Alignment explanation
Indices: 16884307--16884348 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 21
16884297 ATTTTTGGTT
16884307 AAAAATTACCCGAATTAC-CG
1 AAAAATTACCCGAATTACTCG
*
16884327 AAAAA-TACCCTAATTACTCG
1 AAAAATTACCCGAATTACTCG
16884347 AA
1 AA
16884349 TTTTTTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.48, C:0.24, G:0.07, T:0.21
Consensus pattern (21 bp):
AAAAATTACCCGAATTACTCG
Found at i:16889299 original size:13 final size:13
Alignment explanation
Indices: 16889281--16889309 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
16889271 GCCCAAACTT
16889281 AATTACCCAACCC
1 AATTACCCAACCC
16889294 AATTACCCAACCC
1 AATTACCCAACCC
16889307 AAT
1 AAT
16889310 AAAACTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.41, G:0.00, T:0.17
Consensus pattern (13 bp):
AATTACCCAACCC
Found at i:16889462 original size:9 final size:9
Alignment explanation
Indices: 16889450--16889517 Score: 84
Period size: 9 Copynumber: 7.4 Consensus size: 9
16889440 AAATAAAAAA
16889450 AATTCGGGT
1 AATTCGGGT
16889459 AATTCGGGT
1 AATTCGGGT
*
16889468 ATTTTTC-GGT
1 A--ATTCGGGT
*
16889478 AATTCGGTT
1 AATTCGGGT
*
16889487 AATTCGGTT
1 AATTCGGGT
16889496 AATTCGGGT
1 AATTCGGGT
16889505 AATTCGGGT
1 AATTCGGGT
16889514 AATT
1 AATT
16889518 TTTAACCAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
8 3 0.06
9 42 0.81
10 4 0.08
11 3 0.06
ACGTcount: A:0.22, C:0.10, G:0.26, T:0.41
Consensus pattern (9 bp):
AATTCGGGT
Found at i:16890385 original size:9 final size:9
Alignment explanation
Indices: 16890371--16890401 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
16890361 GTTAAACGAA
16890371 TCGAGTTAT
1 TCGAGTTAT
*
16890380 TCGAGTTAA
1 TCGAGTTAT
16890389 TCGAGTTAT
1 TCGAGTTAT
16890398 TCGA
1 TCGA
16890402 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:16890471 original size:9 final size:9
Alignment explanation
Indices: 16890454--16890490 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
16890444 TGAGTTTTCG
16890454 AATTCGAAT
1 AATTCGAAT
*
16890463 AACTCGAAT
1 AATTCGAAT
16890472 AATTCGAAT
1 AATTCGAAT
16890481 AATTCGAAT
1 AATTCGAAT
16890490 A
1 A
16890491 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:16896145 original size:13 final size:13
Alignment explanation
Indices: 16896101--16896138 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
16896091 AAAATTTTTG
16896101 GCTTTTCAAAAGT
1 GCTTTTCAAAAGT
*
16896114 GCTTTTCAGAAGT
1 GCTTTTCAAAAGT
16896127 GCTTTTCAAAAG
1 GCTTTTCAAAAG
16896139 CACTTTTGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (13 bp):
GCTTTTCAAAAGT
Found at i:16896632 original size:13 final size:13
Alignment explanation
Indices: 16896616--16896655 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
16896606 TTTAAACCAA
16896616 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
* * *
16896629 ACTTCTCCATAGC
1 ACTTTTCAAAAGC
16896642 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
16896655 A
1 A
16896656 TTGCCAAACT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.35, C:0.28, G:0.07, T:0.30
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:16896969 original size:2 final size:2
Alignment explanation
Indices: 16896962--16896990 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
16896952 TGAAAAACAG
16896962 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
16896991 TCAAAATTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:16907467 original size:97 final size:97
Alignment explanation
Indices: 16907271--16907455 Score: 279
Period size: 96 Copynumber: 1.9 Consensus size: 97
16907261 TCTTATGGAA
*
16907271 ATAGCATATATGGCAATATAGACACAATAGGGAGTTCAGGCTAGTAGAATACAAGCAATGGAAAA
1 ATAGCATATATGGCAATAAAGACACAATAGGGAGTTCAGGCTAGTAGAATACAAGCAATGGAAAA
*
16907336 TCAGCATTGTACTCAGAATAGAAAAATCAGAG
66 TCAGCACTGTACTCAGAATAGAAAAATCAGAG
16907368 ATAGCA-ATGATGGC-ATAAAGACACAACT-GGGAGTTCAGGAC-AGTAGAATACTAAGCAATGG
1 ATAGCATAT-ATGGCAATAAAGACACAA-TAGGGAGTTCAGG-CTAGTAGAATAC-AAGCAATGG
16907429 AAAAATCAGCACTGTACTCAGAATAGA
62 -AAAATCAGCACTGTACTCAGAATAGA
16907456 TAATTAGAGA
Statistics
Matches: 81, Mismatches: 2, Indels: 9
0.88 0.02 0.10
Matches are distributed among these distances:
96 34 0.42
97 22 0.27
98 25 0.31
ACGTcount: A:0.44, C:0.15, G:0.22, T:0.19
Consensus pattern (97 bp):
ATAGCATATATGGCAATAAAGACACAATAGGGAGTTCAGGCTAGTAGAATACAAGCAATGGAAAA
TCAGCACTGTACTCAGAATAGAAAAATCAGAG
Found at i:16909907 original size:352 final size:353
Alignment explanation
Indices: 16908966--16910480 Score: 2067
Period size: 353 Copynumber: 4.3 Consensus size: 353
16908956 ATAAGCAATC
* * * * *
16908966 GTTGAGAGATTTGTCGTTGTGCACGGTC--A-AATAATACAACTCTTTGCAAAGTATCCTGATGA
1 GTTGAGAGATATGTCGTTGTGCATGGTCAGATAATACTACAACTCTTTGTAGAGTATCCTGATGA
* * *
16909028 GGAGATTAAGAAGTGCACATTTGTCGTAGGCCTTGCACATAAAATGGAAGAGAGACACCATACAA
66 GAAGATTAAGAAATGCACATTTGTCGTAGGCCTTGCAAATAAAATGGAAGAGAGACACCATACAA
* * *
16909093 AATGGTTATTTAAAAAAGGACTAATTATGACTATTTCAATTTTA-AGGACTAAATTGAATAAAAT
131 AATGATTAGTT-AAAAAGGACTAGTTATGACTATTTCAATTTTAGA-GACTAAATTGAATAAAAT
* * * * *
16909157 GTAAAACTTTAAGGGGAAGACGAATAATGAAATTGAATTGATAAATACATATAATAGATTTTTAT
194 GTAAAACTTTAAGGGGCATACGAATAATGAAATTGAACTGATACATACATATAATAGATTGTTAT
* *
16909222 AAGATGTTTGGAATTGATAAATTGAACTGAATTGTTATATAGATCGGGAATTGAACCAAGATGAT
259 AAGATGTTTGGAATTGATAAATCGAACTGAATTGTTATATAGATCGAGAATTGAACCAAGATGAT
* *
16909287 CATGCTTTTATATCTACTAATCCAGCAGTT
324 CATGCTTTTATATCTACTAATCCAACAGCT
* * * * *
16909317 GTTGAGAGATGTGTCGTTGTGCATTG-CTAGATAATATTACAACTTTTTGTAGAGTATCCCGATG
1 GTTGAGAGATATGTCGTTGTGCATGGTC-AGATAATACTACAACTCTTTGTAGAGTATCCTGATG
* * * *
16909381 AGAAGATTAAGAAGTGCACATTTTTCGTAGGCCTTGCAAATAAAATGGAGGAGAGACACCATGCA
65 AGAAGATTAAGAAATGCACATTTGTCGTAGGCCTTGCAAATAAAATGGAAGAGAGACACCATACA
* * **
16909446 AAATGATTAGTTAAAAAGAACAAGTTATGACTATTTTGATTTTAGAGACTAAATTGAATAAAATG
130 AAATGATTAGTTAAAAAGGACTAGTTATGACTATTTCAATTTTAGAGACTAAATTGAATAAAATG
* * * * *
16909511 TGAAACTTTAAGGGGTATATGAATAATAAAATTGAACTGATACATACATATAATGGATTGTTATA
195 TAAAACTTTAAGGGGCATACGAATAATGAAATTGAACTGATACATACATATAATAGATTGTTATA
* * *
16909576 AGATGTTTGGAATTGATAAATTGAACTGAATTGTTATATAAATCGAGAACTGAACCAAGATGATC
260 AGATGTTTGGAATTGATAAATCGAACTGAATTGTTATATAGATCGAGAATTGAACCAAGATGATC
* *
16909641 ATGCTTTTATATCTATTAATCCAACAGTT
325 ATGCTTTTATATCTACTAATCCAACAGCT
* * *
16909670 GTTGAGAGATATGTTGTTGTGCATGGTCAGATAATACTACAACTCTTTGTAGAGTATCTTAATG-
1 GTTGAGAGATATGTCGTTGTGCATGGTCAGATAATACTACAACTCTTTGTAGAGTATCCTGATGA
** * * *
16909734 GAAGATTAAGAAATGCACAACTGTCGTAGGCCTTGCAAATAAAATGGAGGAGATACACCATGCAA
66 GAAGATTAAGAAATGCACATTTGTCGTAGGCCTTGCAAATAAAATGGAAGAGAGACACCATACAA
* * *
16909799 AATGATTAGTTAAAAAGGACTAGTTATGACTATTTCGATTTTAGATATTAAATTGAATAAAATGT
131 AATGATTAGTTAAAAAGGACTAGTTATGACTATTTCAATTTTAGAGACTAAATTGAATAAAATGT
* ** * * *
16909864 AAAACTTTAAGGGGCATATGAATAATGAAATCAAACTGATACATACCTATAATAGATTTTTCTAA
196 AAAACTTTAAGGGGCATACGAATAATGAAATTGAACTGATACATACATATAATAGATTGTTATAA
* * * * * *
16909929 GATGTTTGTAATTAATAAATCAAACTGAATTGTTATATAGATCGGGAATTTAACCAAGATTATCA
261 GATGTTTGGAATTGATAAATCGAACTGAATTGTTATATAGATCGAGAATTGAACCAAGATGATCA
*
16909994 TGTTTTTATATCTACTAATCCAACAGCT
326 TGCTTTTATATCTACTAATCCAACAGCT
*
16910022 GTTGAGAGATATGTCGTTGTGCATGGTCAGATAATACTACAAGTCTTTGTAGAGTATCCTGATGA
1 GTTGAGAGATATGTCGTTGTGCATGGTCAGATAATACTACAACTCTTTGTAGAGTATCCTGATGA
* * * * * *
16910087 GAAGATTAAG-AATAACACATTTTTCGTAGGCCATGCAAATGAAATAGAAGAGAAACACCATACA
66 GAAGATTAAGAAAT-GCACATTTGTCGTAGGCCTTGCAAATAAAATGGAAGAGAGACACCATACA
* *
16910151 AAATGGTTAGTTAAAAAGGACTAGTTATGACTATTTCAATTTTAGGGACTAAATTGAATAAAATG
130 AAATGATTAGTTAAAAAGGACTAGTTATGACTATTTCAATTTTAGAGACTAAATTGAATAAAATG
* * * * *
16910216 TGAAACTTTAAGAGGCATACAAATAATGAAATTGAATTGATACATATATATAATAGATTGTTATA
195 TAAAACTTTAAGGGGCATACGAATAATGAAATTGAACTGATACATACATATAATAGATTGTTATA
* * *
16910281 AGATGTTTGAAATTGATAAATCGAACTGAATTATTATATAGATCGAGAATTGAACCAAGATGATT
260 AGATGTTTGGAATTGATAAATCGAACTGAATTGTTATATAGATCGAGAATTGAACCAAGATGATC
**
16910346 ATGCTTTTATAAATACTAA-CTCAACAGCT
325 ATGCTTTTATATCTACTAATC-CAACAGCT
* * * * * *
16910375 ATTGAAAGATATATCATTGTGTATGGTCAAATAATACTACAACTCTTTGTAGAGTATCCTGATGA
1 GTTGAGAGATATGTCGTTGTGCATGGTCAGATAATACTACAACTCTTTGTAGAGTATCCTGATGA
* *
16910440 GAAGATTAA-AAAGTGCACATTTGTTGTAGGCCTTACAAATA
66 GAAGATTAAGAAA-TGCACATTTGTCGTAGGCCTTGCAAATA
16910481 TCGTTCCAAC
Statistics
Matches: 1026, Mismatches: 127, Indels: 20
0.87 0.11 0.02
Matches are distributed among these distances:
350 1 0.00
351 23 0.02
352 321 0.31
353 581 0.57
354 100 0.10
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.32
Consensus pattern (353 bp):
GTTGAGAGATATGTCGTTGTGCATGGTCAGATAATACTACAACTCTTTGTAGAGTATCCTGATGA
GAAGATTAAGAAATGCACATTTGTCGTAGGCCTTGCAAATAAAATGGAAGAGAGACACCATACAA
AATGATTAGTTAAAAAGGACTAGTTATGACTATTTCAATTTTAGAGACTAAATTGAATAAAATGT
AAAACTTTAAGGGGCATACGAATAATGAAATTGAACTGATACATACATATAATAGATTGTTATAA
GATGTTTGGAATTGATAAATCGAACTGAATTGTTATATAGATCGAGAATTGAACCAAGATGATCA
TGCTTTTATATCTACTAATCCAACAGCT
Found at i:16912714 original size:18 final size:18
Alignment explanation
Indices: 16912691--16912759 Score: 75
Period size: 19 Copynumber: 3.7 Consensus size: 18
16912681 GATGACAAAT
*
16912691 ATGAGAAATGAATATGAG
1 ATGAGAAATGAATATGAA
16912709 ATGAGAAATGAAATATGAA
1 ATGAGAAATG-AATATGAA
*
16912728 ATGATGAAATGATATGTGAA
1 ATGA-GAAATGA-ATATGAA
* *
16912748 TTGTGAAATGAA
1 ATGAGAAATGAA
16912760 ATCAAGTATT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
18 11 0.25
19 19 0.43
20 14 0.32
ACGTcount: A:0.49, C:0.00, G:0.25, T:0.26
Consensus pattern (18 bp):
ATGAGAAATGAATATGAA
Found at i:16915759 original size:25 final size:25
Alignment explanation
Indices: 16915725--16915794 Score: 131
Period size: 25 Copynumber: 2.8 Consensus size: 25
16915715 CAGACCCATT
16915725 TTCACAGCTCATGTGAGCATTTTGA
1 TTCACAGCTCATGTGAGCATTTTGA
16915750 TTCACAGCTCATGTGAGCATTTTGA
1 TTCACAGCTCATGTGAGCATTTTGA
*
16915775 TTCACAGCTCGTGTGAGCAT
1 TTCACAGCTCATGTGAGCAT
16915795 ACATTTACAA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.34
Consensus pattern (25 bp):
TTCACAGCTCATGTGAGCATTTTGA
Found at i:16917662 original size:49 final size:49
Alignment explanation
Indices: 16917608--16917761 Score: 124
Period size: 49 Copynumber: 3.1 Consensus size: 49
16917598 ATAACCAATT
16917608 AATTCAAACATGCATTATTAATCATATTACAAATACGAACCATGCTTCA
1 AATTCAAACATGCATTATTAATCATATTACAAATACGAACCATGCTTCA
* * ** * * * *
16917657 AATTCAATCAT--ATCAATGTCCTCCAT-TCAATCAAATTTTCGATCCA-AC-T--
1 AATTCAAACATGCAT-TAT-TAAT-CATAT-TA-CAAA--TACGAACCATGCTTCA
16917706 AATTCAAACATGCATTATTAATCATATTACAAATACGAACCATGCTTCA
1 AATTCAAACATGCATTATTAATCATATTACAAATACGAACCATGCTTCA
16917755 AATTCAA
1 AATTCAA
16917762 TCATATCAAA
Statistics
Matches: 75, Mismatches: 16, Indels: 28
0.63 0.13 0.24
Matches are distributed among these distances:
45 7 0.09
46 1 0.01
47 7 0.09
48 6 0.08
49 33 0.44
50 6 0.08
51 7 0.09
52 1 0.01
53 7 0.09
ACGTcount: A:0.41, C:0.22, G:0.05, T:0.32
Consensus pattern (49 bp):
AATTCAAACATGCATTATTAATCATATTACAAATACGAACCATGCTTCA
Found at i:16924824 original size:43 final size:42
Alignment explanation
Indices: 16924752--16924869 Score: 118
Period size: 41 Copynumber: 2.8 Consensus size: 42
16924742 CGAAAGGCTC
* * * * *
16924752 ATACAATGCCATCGTCCCAGAC-GTGGTCTTACATGTAATCAC
1 ATACGATGCCATTGTCCTAGACAGTGGTCTTACACG-AATCAA
*
16924794 ATATCGATGCCATTGTCCTAGACAGT-GTCTTACACGAATTAA
1 ATA-CGATGCCATTGTCCTAGACAGTGGTCTTACACGAATCAA
*
16924836 ATACGATGCCAATGT-CTCAGACA-TGGTCTTACAC
1 ATACGATGCCATTGTCCT-AGACAGTGGTCTTACAC
16924870 TTAAACACAA
Statistics
Matches: 65, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
40 3 0.05
41 25 0.38
42 10 0.15
43 25 0.38
44 2 0.03
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (42 bp):
ATACGATGCCATTGTCCTAGACAGTGGTCTTACACGAATCAA
Found at i:16925793 original size:28 final size:28
Alignment explanation
Indices: 16925762--16925817 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
16925752 GTTTGTATTT
*
16925762 TATTATAATAA-GTTTATAATATAATATA
1 TATTATAATAACCTTTATAA-ATAATATA
*
16925790 TATTATTATAACCTTTATAAATAATATA
1 TATTATAATAACCTTTATAAATAATATA
16925818 AAAACTATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 18 0.72
29 7 0.28
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (28 bp):
TATTATAATAACCTTTATAAATAATATA
Found at i:16927868 original size:9 final size:9
Alignment explanation
Indices: 16927856--16927882 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
16927846 CAACATATTT
16927856 TTCATTTTA
1 TTCATTTTA
16927865 TTCATTTTA
1 TTCATTTTA
16927874 TTCATTTTA
1 TTCATTTTA
16927883 GTCCCTATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.22, C:0.11, G:0.00, T:0.67
Consensus pattern (9 bp):
TTCATTTTA
Found at i:16931791 original size:18 final size:17
Alignment explanation
Indices: 16931768--16931810 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
16931758 TTTTTTTAAA
16931768 TATAAATTTTGGAAATTT
1 TATAAATTTT-GAAATTT
*
16931786 TATAAATATTTTAAATTT
1 TATAAAT-TTTGAAATTT
16931804 TA-AAATT
1 TATAAATT
16931811 ATTTTGAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 1 0.04
17 4 0.17
18 15 0.65
19 3 0.13
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (17 bp):
TATAAATTTTGAAATTT
Found at i:16931813 original size:18 final size:18
Alignment explanation
Indices: 16931780--16931820 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
16931770 TAAATTTTGG
16931780 AAATTTTATAAATATTTT
1 AAATTTTATAAATATTTT
16931798 AAATTTTA-AAATTATTTT
1 AAATTTTATAAA-TATTTT
*
16931816 GAATT
1 AAATT
16931821 ATTTTGTAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 3 0.14
18 18 0.86
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (18 bp):
AAATTTTATAAATATTTT
Found at i:16931915 original size:9 final size:9
Alignment explanation
Indices: 16931901--16931934 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
16931891 ATACCAATAT
16931901 GTTATTTGA
1 GTTATTTGA
16931910 GTTATTTGA
1 GTTATTTGA
* *
16931919 ATTATTCGA
1 GTTATTTGA
16931928 GTTATTT
1 GTTATTT
16931935 AAATTGTAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.24, C:0.03, G:0.18, T:0.56
Consensus pattern (9 bp):
GTTATTTGA
Found at i:16931929 original size:18 final size:18
Alignment explanation
Indices: 16931902--16931939 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
16931892 TACCAATATG
* *
16931902 TTATTTGAGTTATTTGAA
1 TTATTCGAGTTATTTAAA
16931920 TTATTCGAGTTATTTAAA
1 TTATTCGAGTTATTTAAA
16931938 TT
1 TT
16931940 GTAAAATTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.29, C:0.03, G:0.13, T:0.55
Consensus pattern (18 bp):
TTATTCGAGTTATTTAAA
Found at i:16935063 original size:17 final size:18
Alignment explanation
Indices: 16935041--16935081 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
16935031 ATGTATAAGT
16935041 ATGTATAT-TAATTA-AAA
1 ATGTATATGT-ATTATAAA
*
16935058 ATGTATGTGTATTATAAA
1 ATGTATATGTATTATAAA
16935076 ATGTAT
1 ATGTAT
16935082 GCATGTATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (18 bp):
ATGTATATGTATTATAAA
Found at i:16935063 original size:21 final size:18
Alignment explanation
Indices: 16935039--16935082 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
16935029 ACATGTATAA
16935039 GTATGTATATTAATTAAAAAT
1 GTATGTATATT-A-T-AAAAT
*
16935060 GTATGTGTATTATAAAAT
1 GTATGTATATTATAAAAT
16935078 GTATG
1 GTATG
16935083 CATGTATATG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 10 0.45
19 1 0.05
20 1 0.05
21 10 0.45
ACGTcount: A:0.41, C:0.00, G:0.16, T:0.43
Consensus pattern (18 bp):
GTATGTATATTATAAAAT
Found at i:16936984 original size:44 final size:44
Alignment explanation
Indices: 16936918--16937119 Score: 114
Period size: 43 Copynumber: 4.7 Consensus size: 44
16936908 GATGTGATCT
**
16936918 GCTCCACTACTGCTT-AGGGAGATAAGATCTGTGGTTTTAATCC
1 GCTCCACTACAACTTCAGGGAGATAAGATCTGTGGTTTTAATCC
* * * ** *
16936961 GCTCCACTGCAACTTCAGGGAGATAGGAT-TG-GTTTCTTTTTCTGTAT
1 GCTCCACTACAACTTCAGGGAGATAAGATCTGTGGTT-TTAATC----C
** * * *** *
16937008 GCTCCACTACTGC-TGAGGGAGATAAGA-CT-T-GATGCGATCT
1 GCTCCACTACAACTTCAGGGAGATAAGATCTGTGGTTTTAATCC
* ** *
16937048 ACTCCACTACTGCTT-AGAGAGATAAGATCTGTGGTTTTAATCC
1 GCTCCACTACAACTTCAGGGAGATAAGATCTGTGGTTTTAATCC
*
16937091 GCTCCACTGCAACTTCAGGGAGATAAGAT
1 GCTCCACTACAACTTCAGGGAGATAAGAT
16937120 TGATTTCTTT
Statistics
Matches: 115, Mismatches: 31, Indels: 25
0.67 0.18 0.15
Matches are distributed among these distances:
40 24 0.21
41 3 0.03
42 4 0.03
43 34 0.30
44 26 0.23
45 1 0.01
46 13 0.11
47 10 0.09
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (44 bp):
GCTCCACTACAACTTCAGGGAGATAAGATCTGTGGTTTTAATCC
Found at i:16937070 original size:130 final size:129
Alignment explanation
Indices: 16936822--16937129 Score: 503
Period size: 130 Copynumber: 2.4 Consensus size: 129
16936812 ATATGATTCA
* * *
16936822 TGGTTTTAATCCGCTCCACTGCAACTTCAAGGAGATAGGATTGGTTTC--TTTTGTCTGCTGCAC
1 TGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTTTTTGTATGCTCCAC
* * * *
16936885 TACTGCTTAGAGAGATAAGACTTGATGTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
66 TACTGCTGAGAGAGATAAGACTTGATGCGATCTACTCCACTACTGCTTAGAGAGATAAGATCTG
16936949 TGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTTTTCTGTATGCTCCA
1 TGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTTTT-TGTATGCTCCA
*
16937014 CTACTGCTGAGGGAGATAAGACTTGATGCGATCTACTCCACTACTGCTTAGAGAGATAAGATCTG
65 CTACTGCTGAGAGAGATAAGACTTGATGCGATCTACTCCACTACTGCTTAGAGAGATAAGATCTG
* *
16937079 TGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATTGATTTCTTT
1 TGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTT
16937130 CAAATTGACT
Statistics
Matches: 168, Mismatches: 10, Indels: 3
0.93 0.06 0.02
Matches are distributed among these distances:
127 47 0.28
129 3 0.02
130 118 0.70
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.33
Consensus pattern (129 bp):
TGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTTTTTGTATGCTCCAC
TACTGCTGAGAGAGATAAGACTTGATGCGATCTACTCCACTACTGCTTAGAGAGATAAGATCTG
Found at i:16937218 original size:50 final size:50
Alignment explanation
Indices: 16937149--16937329 Score: 143
Period size: 50 Copynumber: 3.7 Consensus size: 50
16937139 TGCAATGTCG
* *
16937149 GGGAA-CAAGATTCATCGTTGTAGCTTCAATATGTTCCACTGCACCGCCA
1 GGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCA
* * ** * ** * ** * *
16937198 GGGAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCG
1 GGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCA
* * *
16937248 GGGAAGCAAGATTCACCGTCGTAGCTTCAATCTGCTCCACTGCACCG-CT
1 GGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCA
* * * *
16937297 TGG-AGATAAGATTCACTGTTGTAGCTTTAATCT
1 GGGAAG-CAAGATTCACCGTTGTAGCTTCAATCT
16937330 TTTTAACTGC
Statistics
Matches: 98, Mismatches: 32, Indels: 4
0.73 0.24 0.03
Matches are distributed among these distances:
48 2 0.02
49 31 0.32
50 65 0.66
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.30
Consensus pattern (50 bp):
GGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCA
Found at i:16937334 original size:99 final size:99
Alignment explanation
Indices: 16937137--16937410 Score: 327
Period size: 99 Copynumber: 2.8 Consensus size: 99
16937127 TTTCAAATTG
* *
16937137 ACTGCAATGTCGGGGAA-CAAGATTCATCGTTGTAGCTTCAATATGTTCCACTGCACCGCCAGG-
1 ACTGCAATGTCGGGGAAGCAAGATTCATCGTTGTAGCTTCAATCTGTTCCACTGCACCGCTAGGA
* *
16937200 GAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTTA
66 G-A-TAAGATTCACCGTTGCAGCTTCAATCTTTTTA
* * * * *
16937236 ATTGCAATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTCAATCTGCTCCACTGCACCGCTTGGA
1 ACTGCAATGTCGGGGAAGCAAGATTCATCGTTGTAGCTTCAATCTGTTCCACTGCACCGCTAGGA
* * *
16937301 GATAAGATTCACTGTTGTAGCTTTAATCTTTTTA
66 GATAAGATTCACCGTTGCAGCTTCAATCTTTTTA
* * * * * * * *
16937335 ACTGCAATATCGGGAAAGCAAGATTCGTTGTTATGGCTTTAATCTGTTCCACTACACCGCCTAGG
1 ACTGCAATGTCGGGGAAGCAAGATTCATCGTTGTAGCTTCAATCTGTTCCACTGCACCG-CTAGG
16937400 AGATAAGATTC
65 AGATAAGATTC
16937411 GTTGTTCTTA
Statistics
Matches: 147, Mismatches: 25, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
99 90 0.61
100 56 0.38
101 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (99 bp):
ACTGCAATGTCGGGGAAGCAAGATTCATCGTTGTAGCTTCAATCTGTTCCACTGCACCGCTAGGA
GATAAGATTCACCGTTGCAGCTTCAATCTTTTTA
Found at i:16937773 original size:44 final size:44
Alignment explanation
Indices: 16937688--16937793 Score: 105
Period size: 44 Copynumber: 2.5 Consensus size: 44
16937678 TCCACTCTAC
* *
16937688 TACAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTTCAA
1 TACAACTTCAGAGAGATAAGATCTATGACTTCAATCCGCTTCAA
* * * * *
16937732 TACAACTTCAGGGAGATAGGAT-TATCGGCTTCAATCTGCTTCAT
1 TACAACTTCAGAGAGATAAGATCTAT-GACTTCAATCCGCTTCAA
16937776 TAC-ACTT--GA-AGATAAGAT
1 TACAACTTCAGAGAGATAAGAT
16937794 TCGCTGTCTT
Statistics
Matches: 52, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
40 8 0.15
41 1 0.02
43 7 0.13
44 36 0.69
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (44 bp):
TACAACTTCAGAGAGATAAGATCTATGACTTCAATCCGCTTCAA
Found at i:16937996 original size:129 final size:128
Alignment explanation
Indices: 16937831--16938212 Score: 613
Period size: 129 Copynumber: 3.0 Consensus size: 128
16937821 GCTTAGAGAG
* * *
16937831 AATTT-CCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTA
1 AATTTCCCAACCTATTCCACTGCTGA-TAAGGATATAGGGCTTGTGGCTTAAATCTGCTTCCTTA
* *
16937895 CACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTTCGCTACTGCTTAGAGAGACAAGATCTGT
65 CACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGCTTAGAGAGACAAGATCTAT
*
16937959 AATTTCCCAACCTATTCTACTGCTGATAAGAGATATAGGGCTTGTGGCTTAAATCTGCTTCCTTA
1 AATTTCCCAACCTATTCCACTGCTGATAAG-GATATAGGGCTTGTGGCTTAAATCTGCTTCCTTA
* * * *
16938024 CACTTGAAGATAAGAGTCACCGTCTTCGATCTGCTCCGCGACTGCTTAGGGAGACAAGATCTAT
65 CACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGCTTAGAGAGACAAGATCTAT
* * *
16938088 AATTTCCCAACCTATTCCACTGTTGGTCAAGGATATAGGGCTTGTGGCTTAAATCTACTTCCTTA
1 AATTTCCCAACCTATTCCACTGCTGAT-AAGGATATAGGGCTTGTGGCTTAAATCTGCTTCCTTA
16938153 CACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGCTTAGAGAGACAAGAT
65 CACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGCTTAGAGAGACAAGAT
16938213 ATGCTATCTT
Statistics
Matches: 233, Mismatches: 18, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
128 7 0.03
129 223 0.96
130 3 0.01
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.31
Consensus pattern (128 bp):
AATTTCCCAACCTATTCCACTGCTGATAAGGATATAGGGCTTGTGGCTTAAATCTGCTTCCTTAC
ACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGCTTAGAGAGACAAGATCTAT
Found at i:16939466 original size:14 final size:15
Alignment explanation
Indices: 16939449--16939483 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
16939439 TCATTTTTTA
16939449 TTTTTTA-TTTTCAC
1 TTTTTTATTTTTCAC
16939463 TTTTTTATTTTTCAC
1 TTTTTTATTTTTCAC
16939478 TTTTTT
1 TTTTTT
16939484 TTACTCGAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTTTTATTTTTCAC
Done.